@Preamble{
"\ifx \stack \undefined
\def \stack #1#2{\stackrel{\textstyle #1}{\textstyle #2}}
\fi" #
"\ifx \undefined \bioname \def \bioname #1{{{\em #1\/}}} \fi" #
"\ifx \undefined \booktitle \def \booktitle #1{{{\em #1}}} \fi" #
"\ifx \undefined \circled \def \circled #1{(#1)} \fi" #
"\ifx \undefined \cprime \def \cprime {$\mathsurround=0pt '$} \fi" #
"\ifx \undefined \Dbar \def \Dbar {\leavevmode\raise0.2ex\hbox{--}\kern-0.5emD} \fi" #
"\ifx \undefined \k \let \k = \c \fi" #
"\ifx \undefined \mathbb \def \mathbb #1{{\bf #1}} \fi" #
"\ifx \undefined \mathcal \def \mathcal #1{{\cal #1}} \fi" #
"\ifx \undefined \mathrm \def \mathrm #1{{\rm #1}} \fi" #
"\ifx \undefined \pkg \def \pkg #1{{{\tt #1}}} \fi" #
"\ifx \undefined \reg \def \reg {\circled{R}} \fi" #
"\ifx \undefined \TM \def \TM {${}^{\sc TM}$} \fi" #
"\ifx \undefined \url \def \url #1{{\tt #1}} \fi"
}
@String{ack-nhfb = "Nelson H. F. Beebe,
University of Utah,
Department of Mathematics, 110 LCB,
155 S 1400 E RM 233,
Salt Lake City, UT 84112-0090, USA,
Tel: +1 801 581 5254,
FAX: +1 801 581 4148,
e-mail: \path|beebe@math.utah.edu|,
\path|beebe@acm.org|,
\path|beebe@computer.org| (Internet),
URL: \path|http://www.math.utah.edu/~beebe/|"}
@String{j-J-COMPUT-BIOL = "Journal of Computational Biology"}
@Article{Anonymous:1994:EWC,
author = "Anonymous",
title = "Editorial: Whither Computational Biology",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "1--2",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Overton:1994:QSQ,
author = "G. Christian Overton and Jeffrey S. Aaronson and
Juergen Haas and Julie Adams",
title = "{QGB}: a System for Querying Sequence Database Fields
and Features",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "3--14",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.3",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.3;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.3",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Forsten:1994:PAL,
author = "Kimberly E. Forsten and Douglas A. Lauffenburger",
title = "Probability of Autocrine Ligand Capture by
Cell-Surface Receptors: Implications for Ligand
Secretion Measurements",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "15--23",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.15",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.15;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.15",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Leng:1994:PSS,
author = "Bing Leng and Bruce G. Buchanan and Hugh B. Nicholas",
title = "Protein Secondary Structure Prediction Using Two-Level
Case-Based Reasoning",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "25--38",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.25",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.25;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.25",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{States:1994:QCU,
author = "David J. States and Warren Gish",
title = "{QGB}: Combined Use of Sequence Similarity and Codon
Bias for Coding Region Identification",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "39--50",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.39",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.39;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.39",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Miller:1994:CAS,
author = "Webb Miller and Mark Boguski and Balaji Raghavachari
and Zheng Zhang and Ross C. Hardison",
title = "Constructing Aligned Sequence Blocks",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "51--64",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.51",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.51;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.51",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Keele:1994:CDM,
author = "J. W. Keele and J. E. Wray and D. W. Behrens and G. A.
Rohrer and S. L. F. Sunden and S. M. Kappes and M. D.
Bishop and R. T. Stone and L. J. Alexander and C. W.
Beattie",
title = "A Conceptual Database Model for Genomic Research",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "65--76",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.65",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.65;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.65",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Ferretti:1994:SBC,
author = "V. Ferretti and B. F. Lang and D. Sankoff",
title = "Skewed Base Compositions, Asymmetric Transition
Matrices, and Phylogenetic Invariants",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "1",
pages = "77--92",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.77",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:45:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.77;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.77",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Goldstein:1994:APS,
author = "Larry Goldstein and Michael S. Waterman",
title = "Approximations to Profile Score Distributions",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "93--104",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.93",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.93;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.93",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Dyer:1994:PUS,
author = "Martin Dyer and Alan Frieze and Stephen Suen",
title = "The Probability of Unique Solutions of Sequencing by
Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "105--110",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.105",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
note = "See corrigendum \cite{Dyer:1996:CPU}.",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.105;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.105",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Rohrer:1994:SPE,
author = "G. A. Rohrer and D. W. Behrens and J. W. Keele",
title = "A Simplified Procedure for Entry of Raw Genotypic
Data",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "111--119",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.111",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.111;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.111",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Rustici:1994:TDS,
author = "Mauro Rustici and Arthur M. Lesk",
title = "Three-Dimensional Searching for Recurrent Structural
Motifs in Data Bases of Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "121--132",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.121;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.121",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Charleston:1994:ESL,
author = "Michael A. Charleston and Michael D. Hendy and David
Penny",
title = "The Effects of Sequence Length, Tree Topology, and
Number of Taxa on the Performance of Phylogenetic
Methods",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "133--151",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Steel:1994:RTW,
author = "M. A. Steel and L. A. Sz{\'e}kely and M. D. Hendy",
title = "Reconstructing Trees When Sequence Sites Evolve at
Variable Rates",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "153--163",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Fasman:1994:RGD,
author = "Kenneth H. Fasman",
title = "Restructuring the Genome Data Base: a Model for a
Federation of Biological Databases",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "2",
pages = "165--171",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Robbins:1994:GIC,
author = "Robert J. Robbins",
title = "Genome Informatics I: Community Databases",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "173--190",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Knuppel:1994:TRP,
author = "R. Kn{\"u}ppel and P. Dietze and W. Lehnberg and K.
Frech and E. Wingender",
title = "{TRANSFAC} Retrieval Program: a Network Model Database
of Eukaryotic Transcription Regulating Sequences and
Proteins",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "191--198",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.191",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.191;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.191",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Hide:1994:BED,
author = "Winston Hide and John Burke and Daniel B. {Da Vison}",
title = "Biological Evaluation of d$^2$, an Algorithm for
High-Performance Sequence Comparison",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "199--215",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Zhang:1994:CMA,
author = "Zheng Zhang and Balaji Raghavachari and Ross C.
Hardison and Webb Miller",
title = "Chaining Multiple-Alignment Blocks",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "217--226",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.217;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Wang:1994:SPR,
author = "Chi Wang",
title = "A Subgraph Problem from Restriction Maps of {DNA}",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "227--234",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Zhang:1994:EEP,
author = "Zheng Zhang",
title = "An Exponential Example for a Partial Digest Mapping
Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "235--239",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.235",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.235;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.235",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Martin:1994:ECD,
author = "Daniela R. Martin",
title = "Equivalence Classes for the Double-Digest Problem with
Coincident Cut Sites",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "3",
pages = "241--253",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.241",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.241;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.241",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Gustfield:1994:MEL,
author = "Dan Gustfield and David Shmoys and Jan Karel Lenstra
and Tandy Warnow",
title = "In Memoriam {Eugene L. Lawler}",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "255--256",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.255",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.255",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Miller:1994:QCD,
author = "Mark J. Miller and John I. Powell",
title = "A Quantitative Comparison of {DNA} Sequence Assembly
Programs",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "257--269",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.257",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.257;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.257",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Chao:1994:RDL,
author = "Kun-Mao Chao and Ross C. Hardison and Webb Miller",
title = "Recent Developments in Linear-Space Alignment Methods:
a Survey",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "271--291",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.271",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.271;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.271",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Rioux:1994:PSE,
author = "Pierre A. Rioux and William A. Gilbert and Timothy G.
Littlejohn",
title = "A Portable Search Engine and Browser for the Entrez
Database",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "293--295",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.293",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.293;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.293",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Taylor:1994:MBP,
author = "William R. Taylor",
title = "Motif-Biased Protein Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "297--310",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.297",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.297;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.297",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Baldi:1994:HMM,
author = "Pierre Baldi and Yves Chauvin",
title = "Hidden {Markov} Models of the {G}-Protein-Coupled
Receptor Family",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "311--336",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.311",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.311;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.311",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Wang:1994:CMS,
author = "Lusheng Wang and Tao Jiang",
title = "On the Complexity of Multiple Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "337--348",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.337",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.337;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.337",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Naor:1994:NOA,
author = "Dalit Naor and Douglas L. Brutlag",
title = "On Near-Optimal Alignments of Biological Sequences",
journal = j-J-COMPUT-BIOL,
volume = "1",
number = "4",
pages = "349--366",
month = jan,
year = "1994",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1994.1.349",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1994.1.349;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1994.1.349",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 June 2009",
}
@Article{Beaver:1995:CD,
author = "Donald Beaver",
title = "Computing with {DNA}",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "1--7",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Eddy:1995:MDH,
author = "Sean R. Eddy and Graeme Mitchison and Richard Durbin",
title = "Maximum Discrimination Hidden {Markov} Models of
Sequence Consensus",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "9--23",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.9",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.9;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.9",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Sewell:1995:MCP,
author = "Roger F. Sewell and Richard Durbin",
title = "Method for Calculation of Probability of Matching a
Bounded Regular Expression in a Random Data String",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "25--31",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.25",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.25;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.25",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Jain:1995:NSC,
author = "Mudita Jain and Eugene W. Myers",
title = "A Note on Scoring Clones Given a Probe Ordering",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "33--37",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.33",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.33;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.33",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Steel:1995:CCL,
author = "M. A. Steel and Y. X. Fu",
title = "Classifying and Counting Linear Phylogenetic
Invariants for the Jukes--{Cantor} Model",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "39--47",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.39",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.39;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.39",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Weiss:1995:MPC,
author = "Gunter Weiss and Arndt {Von Haeseler}",
title = "Modeling the Polymerase Chain Reaction",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "49--61",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.49",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.49;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.49",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Sun:1995:PCR,
author = "Fengzhu Sun",
title = "The Polymerase Chain Reaction and Branching
Processes",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "63--86",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.63",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.63;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.63",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Gelfand:1995:PFD,
author = "M. S. Gelfand",
title = "Prediction of Function in {DNA} Sequence Analysis",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "87--115",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.87",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.87;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.87",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Fickett:1995:OGH,
author = "James W. Fickett",
title = "{ORFs} and Genes: How Strong a Connection?",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "117--123",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Berger:1995:APS,
author = "Bonnie Berger",
title = "Algorithms for Protein Structural Motif Recognition",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "125--138",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Goldberg:1995:FSA,
author = "Paul W. Goldberg and Martin C. Golumbic and Haim
Kaplan and Ron Shamir",
title = "Four Strikes Against Physical Mapping of {DNA}",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "1",
pages = "139--152",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Pevzner:1995:CMD,
author = "Pavel A. Pevzner",
title = "Combinatorial Methods for {DNA} Mapping and
Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "153--158",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Alizadeh:1995:PMC,
author = "Farid Alizadeh and Richard M. Karp and Deborah K.
Weisser and Geoffrey Zweig",
title = "Physical Mapping of Chromosomes Using Unique Probes",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "159--184",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.159",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.159;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.159",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Gillett:1995:FCS,
author = "Will Gillett and Jim Daues and Liz Hanks and Rob
Capra",
title = "Fragment Collapsing and Splitting While Assembling
High-Resolution Restriction Maps",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "185--205",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Dyer:1995:OCL,
author = "Martin Dyer and Alan Frieze and Stephen Suen",
title = "Ordering Clone Libraries in Computational Biology",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "207--218",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.207",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.207;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.207",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Greenberg:1995:PMS,
author = "David S. Greenberg and Sorin Istrail",
title = "Physical Mapping by {STS} Hybridization: Algorithmic
Strategies and the Challenge of Software Evaluation",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "219--273",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Myers:1995:TSA,
author = "Eugene W. Myers",
title = "Toward Simplifying and Accurately Formulating Fragment
Assembly",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "275--290",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.275;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.275",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Idury:1995:NAD,
author = "Ramana M. Idury and Michael S. Waterman",
title = "A New Algorithm for {DNA} Sequence Assembly",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "291--306",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.291",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.291;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.291",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Armen:1995:SSS,
author = "Chris Armen and Clifford Stein",
title = "Short Superstrings and the Structure of Overlapping
Strings",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "307--332",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.307",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.307;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.307",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Skiena:1995:RSS,
author = "Steven S. Skiena and Gopalakrishnan Sundaram",
title = "Reconstructing Strings from Substrings",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "333--353",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.333",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.333;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.333",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Milosavljevic:1995:DSR,
author = "Aleksandar Milosavljevi{\'c}",
title = "{DNA} Sequence Recognition by Hybridization to Short
Oligomers",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "355--370",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.355",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.355;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.355",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Rubinov:1995:RSS,
author = "A. R. Rubinov and M. S. Gelfand",
title = "Reconstruction of a String from Substring Precedence
Data",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "371--381",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.371",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.371;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.371",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Razgulyaev:1995:SPN,
author = "Oleg Razgulyaev and Anatoly Rubinov and Mikhail
Gelfand and Alexander Chetverin",
title = "Sequencing Potential of Nested {Strand}
Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "2",
pages = "383--395",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.383",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.383;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.383",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Agarwala:1995:FAI,
author = "Richa Agarwala and David Fern{\'a}ndez-Baca and Giora
Slutzki",
title = "Fast Algorithms for Inferring Evolutionary Trees",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "397--407",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.397",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.397;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.397",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Sun:1995:ATG,
author = "Jian Sun and Wen-Yuan Song and Li-Huang Zhu and
Run-Sheng Chen",
title = "Analysis of {tRNA} Gene Sequences by Neural Network",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "409--416",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.409",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.409;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.409",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Schbath:1995:EMD,
author = "Sophie Schbath and Bernard Prum and Elisabeth {De
Turckheim}",
title = "Exceptional Motifs in Different {Markov} Chain Models
for a Statistical Analysis of {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "417--437",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.417",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.417;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.417",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Charleston:1995:TCL,
author = "M. A. Charleston",
title = "Toward a Characterization of Landscapes of
Combinatorial Optimization Problems, with Special
Attention to the Phylogeny Problem",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "439--450",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.439",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.439;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.439",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Worley:1995:INM,
author = "K. C. Worley and K. Y. King and S. Chua and E. R. B.
Mccabe and R. F. Smith",
title = "Identification of New Members of a Carbohydrate
Kinase-Encoding Gene Family",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "451--458",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.451",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.451;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.451",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Gupta:1995:IPS,
author = "Sandeep K. Gupta and John D. Kececioglu and Alejandro
A. Sch{\"a}ffer",
title = "Improving the Practical Space and Time Efficiency of
the Shortest-Paths Approach to Sum-of-Pairs Multiple
Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "459--472",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.459",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.459;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.459",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Salzberg:1995:LPC,
author = "Steven Salzberg",
title = "Locating Protein Coding Regions in Human {DNA} Using a
Decision Tree Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "473--485",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.473",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.473;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.473",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Baldi:1995:SMH,
author = "Pierre Baldi",
title = "Substitution Matrices and Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "3",
pages = "487--491",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.487",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.487;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.487",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Mirkin:1995:BCM,
author = "Boris Mirkin and Ilya Muchnik and Temple F. Smith",
title = "A Biologically Consistent Model for Comparing
Molecular Phylogenies",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "493--507",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.493",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.493;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.493",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Wareham:1995:SPN,
author = "H. Todd Wareham",
title = "A Simplified Proof of the {NP}- and {MAX SNP}-Hardness
of Multiple Sequence Tree Alignment",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "509--514",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.509",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.509;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.509",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Benham:1995:HTW,
author = "Craig Benham and Sampath Kannan and Michael Paterson
and Tandy Warnow",
title = "{Hen}'s Teeth and {Whale}'s Feet: Generalized
Characters and Their Compatibility",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "515--525",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.515",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.515;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.515",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Reva:1995:CLM,
author = "Boris A. Reva and Dmitrii S. Rykunov and Arthur J.
Olson and Alexei V. Finkelstein",
title = "Constructing Lattice Models of Protein Chains with
Side Groups",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "527--535",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.527",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.527;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.527",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Markowitz:1995:HMB,
author = "Victor M. Markowitz",
title = "Heterogeneous Molecular Biology Databases",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "537--538",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.537",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.537",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Letovsky:1995:BIM,
author = "Stanley Letovsky",
title = "Beyond the Information Maze",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "539--546",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.539",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.539;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.539",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Markowitz:1995:CHM,
author = "Victor M. Markowitz and Otto Ritter",
title = "Characterizing Heterogeneous Molecular Biology
Database Systems",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "547--556",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.547",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.547;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.547",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Davidson:1995:CIB,
author = "S. B. Davidson and C. Overton and P. Buneman",
title = "Challenges in Integrating Biological Data Sources",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "557--572",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.557",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.557;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.557",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Karp:1995:SDI,
author = "Peter D. Karp",
title = "A Strategy for Database Interoperation",
journal = j-J-COMPUT-BIOL,
volume = "2",
number = "4",
pages = "573--586",
month = jan,
year = "1995",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1995.2.573",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1995.2.573;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1995.2.573",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Agarwal:1996:BED,
author = "Pankaj Agarwal and David J. States",
title = "A {Bayesian} Evolutionary Distance for Parametrically
Aligned Sequences",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "1--17",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Hendy:1996:CFL,
author = "Michael D. Hendy and David Penny",
title = "Complete Families of Linear Invariants for Some
Stochastic Models of Sequence Evolution, with and
without the Molecular Clock Assumption",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "19--31",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.19",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.19;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.19",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Myers:1996:AMN,
author = "Eugene W. Myers",
title = "Approximate Matching of Network Expressions with
Spacers",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "33--51",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.33",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.33;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.33",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Hart:1996:FPF,
author = "William E. Hart and Sorin C. Istrail",
title = "Fast Protein Folding in the Hydrophobic--Hydrophilic
Model within Three-Eighths of Optimal",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "53--96",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.53",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.53;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.53",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Takahashi:1996:MSN,
author = "Yoshikane Takahashi",
title = "A Mathematical Solution to a Network Designing
Problem",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "97--141",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.97",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.97;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.97",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Joshi:1996:PLI,
author = "Rajani R. Joshi and K. Krishnanand",
title = "Probabilistic Learning in Immune Network: Weighted
Tree Matching Model",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "143--162",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Riis:1996:IPP,
author = "S{\o}ren Kamaric Riis and Anders Krogh",
title = "Improving Prediction of Protein Secondary Structure
Using Structured Neural Networks and Multiple Sequence
Alignments",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "163--183",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Tsang:1996:SFP,
author = "Simon Tsang and Milton H. {Saier, Jr.}",
title = "A Simple Flexible Program for the Computational
Analysis of Amino Acyl Residue Distribution in
Proteins: Application to the Distribution of Aromatic
versus Aliphatic Hydrophobic Amino Acids in
Transmembrane $ \alpha $-Helical Spanners of Integral
Membrane Transport Proteins",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "185--190",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Karp:1996:IAM,
author = "Peter D. Karp and Suzanne Paley",
title = "Integrated Access to Metabolic and Genomic Data",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "1",
pages = "191--212",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.191",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.191;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.191",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Singh:1996:DTP,
author = "Raj K. Singh and Alexander Tropsha and Iosif I.
Vaisman",
title = "{Delaunay} Tessellation of Proteins: Four Body
Nearest-Neighbor Propensities of Amino Acid Residues",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "213--221",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.213",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.213;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.213",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Gelfand:1996:RGH,
author = "M. S. Gelfand and L. I. Podolsky and T. V. Astakhova
and M. A. Roytberg",
title = "Recognition of Genes in Human {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "223--234",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.223",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.223;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.223",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Schierwater:1996:ENP,
author = "Bernd Schierwater and Dirk Metzler and Katja
Kr{\"u}ger and Bruno Streit",
title = "The Effects of Nested Primer Binding Sites on the
Reproducibility of {PCR}: Mathematical Modeling and
Computer Simulation Studies",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "235--251",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.235",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.235;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.235",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Huynen:1996:BPP,
author = "Martijn A. Huynen and Alan Perelson and Wayne A.
Vieira and Peter F. Stadler",
title = "Base Pairing Probabilities in a Complete {HIV-1}
{RNA}",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "253--274",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Bryant:1996:HTB,
author = "David Bryant",
title = "Hunting for Trees in Binary Character Sets: Efficient
Algorithms for Extraction, Enumeration, and
Optimization",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "275--288",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.275;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.275",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Koch:1996:AFM,
author = "Ina Koch and Thomas Lengauer and Egon Wanke",
title = "An Algorithm for Finding Maximal Common Subtopologies
in a Set of Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "289--306",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.289",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.289;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.289",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Kelly:1996:BAA,
author = "Colleen Kelly and Gary A. Churchill",
title = "Biases in Amino Acid Replacement Matrices and
Alignment Scores Due to Rate Heterogeneity",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "307--318",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.307",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.307;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.307",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Nadkarni:1996:DWD,
author = "Prakash Nadkarni and Kei-Hoi Cheung and Carmela
Castiglione and Perry Miller and Kenneth Kidd",
title = "{DNA} Workbench: a Database Package to Manage Regional
Physical Mapping",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "319--329",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.319",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.319;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.319",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Dyer:1996:CPU,
author = "Martin Dyer and Alan Frieze and Stephen Suen",
title = "Corrigendum to {{\booktitle{Probability of Unique
Solutions of Sequencing by Hybridization}}}",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "2",
pages = "331--331",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.331",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
note = "See \cite{Dyer:1994:PUS}.",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.331",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Xu:1996:IAC,
author = "Ying Xu and Richard J. Mural and Edward C.
Uberbacher",
title = "An Iterative Algorithm for Correcting Sequencing
Errors in {DNA} Coding Regions",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "333--344",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.333",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.333;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.333",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Leung:1996:USD,
author = "Ming-Ying Leung and Genevieve M. Marsh and Terence P.
Speed",
title = "Over- and Underrepresentation of Short {DNA} Words in
Herpesvirus Genomes",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "345--360",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.345",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.345;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.345",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Mamitsuka:1996:LMH,
author = "Hiroshi Mamitsuka",
title = "A Learning Method of Hidden {Markov} Models for
Sequence Discrimination",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "361--373",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.361",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.361;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.361",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Wu:1996:SBD,
author = "Thomas D. Wu",
title = "A Segment-Based Dynamic Programming Algorithm for
Predicting Gene Structure",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "375--394",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.375",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.375;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.375",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Knill:1996:IPE,
author = "E. Knill and A. Schliep and D. C. Torney",
title = "Interpretation of Pooling Experiments Using the
{Markov} Chain {Monte Carlo} Method",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "395--406",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.395",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.395;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.395",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Salamon:1996:DUC,
author = "Hugh Salamon and Jorma Tarhio and Kjersti R{\o}nningen
and Glenys Thomson",
title = "On Distinguishing Unique Combinations in Biological
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "407--423",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.407",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.407;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.407",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Arratia:1996:PPA,
author = "Richard Arratia and Daniela Martin and Gesine Reinert
and Michael S. Waterman",
title = "{Poisson} Process Approximation for Sequence Repeats,
and Sequencing by Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "425--463",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.425",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.425;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.425",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Robbins:1996:BEI,
author = "Robert J. Robbins",
title = "Bioinformatics: Essential Infrastructure for Global
Biology$^1$",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "3",
pages = "465--478",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.465",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.465;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.465",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Griffiths:1996:AIS,
author = "R. C. Griffiths and P. Marjoram",
title = "Ancestral Inference from Samples of {DNA} Sequences
with Recombination",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "4",
pages = "479--502",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.479",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.479;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.479",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Bhandarkar:1996:PCP,
author = "Suchendra M. Bhandarkar and Sridhar Chirravuri and
Jonathan Arnold",
title = "Parallel Computing of Physical Maps --- a Comparative
Study in {SIMD} and {MIMD} Parallelism",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "4",
pages = "503--528",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.503",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.503;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.503",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Joshi:1996:SOC,
author = "Rajani R. Joshi",
title = "A Self-Organizing Cognitive Network of Antibody
Repertoire Development",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "4",
pages = "529--545",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.529",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.529;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.529",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Wu:1996:PCD,
author = "Cathy H. Wu and Sheng Zhao and Hsi-Lien Chen",
title = "A Protein Class Database Organized with {ProSite}
Protein Groups and {PIR} Superfamilies",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "4",
pages = "547--561",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.547",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.547;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.547",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Myers:1996:PMA,
author = "Gene Myers and Sanford Selznick and Zheng Zhang and
Webb Miller",
title = "Progressive Multiple Alignment with Constraints",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "4",
pages = "563--572",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.563",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.563;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.563",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Teitelman:1996:PCA,
author = "Michael Teitelman and Frank H. Eeckman",
title = "Principal Component Analysis and Large-Scale
Correlations in Non-Coding Sequences of Human {DNA}",
journal = j-J-COMPUT-BIOL,
volume = "3",
number = "4",
pages = "573--576",
month = jan,
year = "1996",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1996.3.573",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1996.3.573;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1996.3.573",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Hart:1997:RPN,
author = "William E. Hart and Sorin Istrail",
title = "Robust Proofs of {NP-Hardness} for Protein Folding:
General Lattices and Energy Potentials",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "1",
pages = "1--22",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Vingron:1997:TIM,
author = "Martin Vingron and Arndt {Von Haeseler}",
title = "Towards Integration of Multiple Alignment and
Phylogenetic Tree Construction",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "1",
pages = "23--34",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.23",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.23;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.23",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Tanushev:1997:CLT,
author = "Miroslav S. Tanushev and Richard Arratia",
title = "Central Limit Theorem for Renewal Theory for Several
Patterns",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "1",
pages = "35--44",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.35",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.35;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.35",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Bailey:1997:SDS,
author = "Timothy L. Bailey and Michael Gribskov",
title = "Score Distributions for Simultaneous Matching to
Multiple Motifs",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "1",
pages = "45--59",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.45",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.45;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.45",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Schbath:1997:CPP,
author = "Sophie Schbath",
title = "Coverage Processes in Physical Mapping by Anchoring
Random Clones",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "1",
pages = "61--82",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.61",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.61;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.61",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Ponomarenko:1997:GPP,
author = "Michael P. Ponomarenko and Anna N. Kolchanova and
Nikolay A. Kolchanov",
title = "Generating Programs for Predicting the Activity of
Functional Sites",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "1",
pages = "83--90",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.83",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.83;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.83",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Anantharaman:1997:GOM,
author = "Thomas S. Anantharaman and Bud Mishra and David C.
Schwartz",
title = "Genomics via Optical Mapping {II}: Ordered Restriction
Maps",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "91--118",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.91",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.91;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.91",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Dancik:1997:HFC,
author = "Vlado Dan{\v{c}}{\'i}k and Sridhar Hannenhalli and S.
Muthukrishnan",
title = "Hardness of Flip-Cut Problems from Optical Mapping",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "119--125",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.119",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.119;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.119",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Henderson:1997:FGD,
author = "John Henderson and Steven Salzberg and Kenneth H.
Fasman",
title = "Finding Genes in {DNA} with a Hidden {Markov} Model",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "127--141",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.127",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.127;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.127",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Kearney:1997:SPC,
author = "Paul E. Kearney",
title = "A Six-Point Condition for Ordinal Matrices",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "143--156",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Farach:1997:RCD,
author = "Martin Farach",
title = "Recognizing Circular Decomposable Metrics",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "157--162",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Hochbaum:1997:PCE,
author = "Dorit S. Hochbaum and Anu Pathria",
title = "Path Costs in Evolutionary Tree Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "163--175",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Zhang:1997:MMS,
author = "Louxin Zhang",
title = "On a {Mirkin--Muchnik--Smith} Conjecture for Comparing
Molecular Phylogenies",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "177--187",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.177",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.177;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.177",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Schbath:1997:ESD,
author = "Sophie Schbath",
title = "An Efficient Statistic to Detect Over- and
Under-represented Words in {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "189--192",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Dalgaard:1997:SMP,
author = "Jacob Z. Dalgaard and Michael J. Moser and Richard
Hughey and I. Saira Mian",
title = "Statistical Modeling, Phylogenetic Analysis and
Structure Prediction of a Protein Splicing Domain
Common to Inteins and Hedgehog Proteins",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "2",
pages = "193--214",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Waterman:1997:PSR,
author = "Michael S. Waterman and Sorin Istrail and Pavel A.
Pevzner",
title = "Preface: Special {RECOMB'97} Issues",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "215--215",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Smith:1997:CLP,
author = "Temple F. Smith and Loredana {Lo Conte} and Jadwiga
Bienkowska and Chrysanthe Gaitatzes and Robert G.
{Rogers, Jr.} and Richard Lathrop",
title = "Current Limitations to Protein Threading Approaches",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "217--225",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.217;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Dill:1997:PSE,
author = "K. A. Dill and A. T. Phillips and J. B. Rosen",
title = "Protein Structure and Energy Landscape Dependence on
Sequence Using a Continuous Energy Function",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "227--239",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Hart:1997:LLS,
author = "William E. Hart and Sorin Istrail",
title = "Lattice and Off-Lattice Side Chain Models of Protein
Folding: Linear Time Structure Prediction Better than
86\% of Optimal",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "241--259",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.241",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.241;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.241",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Berger:1997:IMI,
author = "Bonnie Berger and Mona Singh",
title = "An Iterative Method for Improved Protein Structural
Motif Recognition",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "261--273",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.261;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.261",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Agarwala:1997:LRP,
author = "Richa Agarwala and Serafim Batzoglou and Vlado
Dan{\v{c}}{\'i}k and Scott E. Decatur and Sridhar
Hannenhalli and Martin Farach and S. Muthukrishnan and
Steven Skiena",
title = "Local Rules for Protein Folding on a Triangular
Lattice and Generalized Hydrophobicity in the {HP}
Model",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "275--296",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.275;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.275",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Sze:1997:VAG,
author = "Sing-Hoi Sze and Pavel A. Pevzner",
title = "{Las Vegas} Algorithms for Gene Recognition:
Suboptimal and Error-Tolerant Spliced Alignment",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "297--309",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.297",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.297;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.297",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Reese:1997:ISS,
author = "Martin G. Reese and Frank H. Eeckman and David Kulp
and David Haussler",
title = "Improved Splice Site Detection in {Genie}",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "311--323",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.311",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.311;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.311",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Xu:1997:AGI,
author = "Ying Xu and Edward C. Uberbacher",
title = "Automated Gene Identification in Large-Scale Genomic
Sequences$^1$",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "325--338",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.325",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.325;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.325",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Zhang:1997:ADS,
author = "Zheng Zhang and William R. Pearson and Webb Miller",
title = "Aligning a {DNA} Sequence with a Protein Sequence",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "339--349",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.339",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.339;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.339",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Benson:1997:SAT,
author = "Gary Benson",
title = "Sequence Alignment with Tandem Duplication",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "351--367",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.351",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.351;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.351",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Anson:1997:RPR,
author = "Eric L. Anson and Eugene W. Myers",
title = "{ReAligner}: a Program for Refining {DNA} Sequence
Multi-Alignments",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "369--383",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.369",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.369;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.369",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Shibuya:1997:NFA,
author = "Tetsuo Shibuya and Hiroshi Imai",
title = "New Flexible Approaches for Multiple Sequence
Alignment",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "385--413",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.385",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.385;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.385",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Schwikowski:1997:DPH,
author = "Benno Schwikowski and Martin Vingron",
title = "The Deferred Path Heuristic for the Generalized Tree
Alignment Problem",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "3",
pages = "415--431",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.415",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.415;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.415",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Christof:1997:BCA,
author = "Thomas Christof and Michael J{\"u}nger and John
Kececioglu and Petra Mutzel and Gerhard Reinelt",
title = "A Branch-and-Cut Approach to Physical Mapping of
Chromosomes by Unique End-Probes",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "433--447",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.433",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.433;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.433",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Jain:1997:ACI,
author = "Mudita Jain and Eugene W. Myers",
title = "Algorithms for Computing and Integrating Physical Maps
Using Unique Probes",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "449--466",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.449",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.449;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.449",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Sun:1997:PSE,
author = "Fengzhu Sun and Gary Benson and Norm Arnheim and
Michael Waterman",
title = "Pooling Strategies for Establishing Physical Genome
Maps Using {FISH}",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "467--486",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.467",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.467;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.467",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Slonim:1997:BHG,
author = "Donna Slonim and Leonid Kruglyak and Lincoln Stein and
Eric Lander",
title = "Building Human Genome Maps with Radiation Hybrids",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "487--504",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.487",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.487;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.487",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Heath:1997:MCM,
author = "S. C. Heath",
title = "{Markov} Chain {Monte Carlo} Methods for Radiation
Hybrid Mapping",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "505--515",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.505",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.505;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.505",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Ben-Dor:1997:CRH,
author = "Amir Ben-Dor and Benny Chor",
title = "On Constructing Radiation Hybrid Maps",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "517--533",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.517",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.517;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.517",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Lin:1997:AHA,
author = "Shili Lin and Terence P. Speed",
title = "An Algorithm for Haplotype Analysis",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "535--546",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.535",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.535;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.535",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Cohen:1997:NTD,
author = "Jaime Cohen and Martin Farach",
title = "Numerical Taxonomy on Data: Experimental Results",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "547--558",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.547",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.547;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.547",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Sankoff:1997:CSI,
author = "David Sankoff and Vincent Ferretti and Joseph H.
Nadeau",
title = "Conserved Segment Identification",
journal = j-J-COMPUT-BIOL,
volume = "4",
number = "4",
pages = "559--565",
month = jan,
year = "1997",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1997.4.559",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1997.4.559;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1997.4.559",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2009",
}
@Article{Kruglyak:1998:FML,
author = "Leonid Kruglyak and Eric S. Lander",
title = "Faster Multipoint Linkage Analysis Using {Fourier}
Transforms",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "1--7",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Kosaraju:1998:AAG,
author = "S. Rao Kosaraju and Alejandro A. Sch{\"a}ffer and
Leslie G. Biesecker",
title = "Approximation Algorithms for a Genetic Diagnostics
Problem",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "9--26",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.9",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.9;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.9",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Berger:1998:PFH,
author = "Bonnie Berger and Tom Leighton",
title = "Protein Folding in the Hydrophobic--Hydrophilic ({{\em
HP\/}}) Model is {NP}-Complete",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "27--40",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.27",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.27;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.27",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Escalier:1998:PMI,
author = "Vincent Escalier and Jo{\'e}l Pothier and Henri
Soldano and Alain Viari",
title = "Pairwise and Multiple Identification of
Three-Dimensional Common Substructures in Proteins",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "41--56",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.41",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.41;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.41",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Mian:1998:SMP,
author = "I. Saira Mian and Michael J. Moser and William R.
Holley and Aloke Chatterjee",
title = "Statistical Modelling and Phylogenetic Analysis of a
Deaminase Domain",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "57--72",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.57",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.57;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.57",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Bentil:1998:MSM,
author = "Daniel E. Bentil",
title = "Modelling and Simulation of Motility in Actomyosin
Systems",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "73--86",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.73",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.73;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.73",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Benson:1998:DTM,
author = "Gary Benson and Xiaoping Su",
title = "On the Distribution of {$K$}-tuple Matches for
Sequence Homology: a Constant Time Exact Calculation of
the Variance",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "87--100",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.87",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.87;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.87",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Siegel:1998:EVT,
author = "Andrew F. Siegel and Jared C. Roach and Ger {Van Den
Engh}",
title = "Expectation and Variance of True and False Fragment
Matches in {DNA} Restriction Mapping",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "101--111",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Siegel:1998:ORF,
author = "Andrew F. Siegel and Jared C. Roach and Charles
Magness and Ed Thayer and Ger {Van Den Engh}",
title = "Optimization of Restriction Fragment {DNA} Mapping",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "113--126",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Wang:1998:CAT,
author = "Lusheng Wang and Dan Gusfield",
title = "Constructing Additive Trees When the Error Is Small",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "127--133",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.127",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.127;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.127",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Eulenstein:1998:DBM,
author = "O. Eulenstein and B. Mirkin and M. Vingron",
title = "Duplication-Based Measures of Difference Between Gene
and Species Trees",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "135--148",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.135;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.135",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{VonHaeseler:1998:EDA,
author = "Arndt {Von Haeseler} and Michael Sch{\"o}niger",
title = "Evolution of {DNA} or Amino Acid Sequences with
Dependent Sites",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "149--163",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Kruglyak:1998:MSH,
author = "Semyon Kruglyak",
title = "Multistage Sequencing by Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "1",
pages = "165--171",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Apostolico:1998:SAM,
author = "Alberto Apostolico and Raffaele Giancarlo",
title = "Sequence Alignment in Molecular Biology",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "173--196",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Zhang:1998:ALS,
author = "Zheng Zhang and Piotr Berman and Webb Miller",
title = "Alignments Without Low-Scoring Regions",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "197--210",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Bailey:1998:MSC,
author = "Timothy L. Bailey and Michael Gribskov",
title = "Methods and Statistics for Combining Motif Match
Scores",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "211--221",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.211",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.211;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.211",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Reinert:1998:CPP,
author = "Gesine Reinert and Sophie Schbath",
title = "Compound {Poisson} and {Poisson} Process
Approximations for Occurrences of Multiple Words in
{Markov} Chains",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "223--253",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.223",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.223;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.223",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Smith:1998:SBA,
author = "Lloyd M. Smith and Robert M. Corn and Anne E. Condon
and Max G. Lagally and Anthony G. Frutos and Qinghua
Liu and Andrew J. Thiel",
title = "A Surface-Based Approach to {DNA} Computation",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "255--267",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.255",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.255;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.255",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Liu:1998:DCS,
author = "Qinghua Liu and Anthony G. Frutos and Andrew J. Thiel
and Robert M. Corn and Lloyd M. Smith",
title = "{DNA} Computing on Surfaces: Encoding Information at
the Single Base Level",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "269--278",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.269;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.269",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Brazma:1998:AAD,
author = "Alvis Brazma and Inge Jonassen and Ingvar Eidhammer
and David Gilbert",
title = "Approaches to the Automatic Discovery of Patterns in
Biosequences",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "279--305",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.279",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.279;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.279",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Laub:1998:FIE,
author = "Michael T. Laub and Douglas W. Smith",
title = "Finding Intron/Exon Splice Junctions Using {INFO},
{INterruption} Finder and Organizer",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "307--321",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.307",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.307;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.307",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Browning:1998:RIC,
author = "Sharon Browning",
title = "Relationship Information Contained in Gamete Identity
by Descent Data",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "323--334",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.323",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.323;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.323",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Przytycka:1998:TRA,
author = "Teresa M. Przytycka",
title = "Transforming Rooted Agreement into Unrooted
Agreement",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "335--349",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.335",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.335;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.335",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Benhabiles:1998:DAP,
author = "Nora Benhabil{\`e}s and Xavier Gallet and Annick
Thomas-Soumarmon and Robert Brasseur",
title = "A Descriptive Analysis of Populations of
Three-Dimensional Structures Calculated from Primary
Sequences of Proteins by {OSIRIS}",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "2",
pages = "351--366",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.351",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.351;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.351",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Pevzner:1998:P,
author = "Pavel A. Pevzner",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "367--367",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.367",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.367",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Badretdinov:1998:HHC,
author = "Azat Ya Badretdinov and Alexei V. Finkelstein",
title = "How Homologs Can Help to Predict Protein Folds Even
Though They Cannot Be Predicted for Individual
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "369--376",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.369",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.369;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.369",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Ben-Dor:1998:CPQ,
author = "Amir Ben-Dor and Benny Chor and Dan Graur and Ron
Ophir and Dan Pelleg",
title = "Constructing Phylogenies from Quartets: Elucidation of
{Eutherian} Superordinal Relationships",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "377--390",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.377",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.377;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.377",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Bonet:1998:BMS,
author = "Maria Bonet and Mike Steel and Tandy Warnow and Shibu
Yooseph",
title = "Better Methods for Solving Parsimony and
Compatibility",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "391--407",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.391",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.391;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.391",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Chen:1998:HOM,
author = "Cheng Che Chen and Jas Winder Pal Singh and Russ B.
Altman",
title = "Hierarchical Organization of Molecular Structure
Computations",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "409--422",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.409",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.409;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.409",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Crescenzi:1998:CPF,
author = "Pierluigi Crescenzi and Deborah Goldman and Christos
Papadimitriou and Antonio Piccolboni and Mihalis
Yannakakis",
title = "On the Complexity of Protein Folding",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "423--465",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.423",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.423;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.423",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Gelfand:1998:ADC,
author = "Israel Gelfand and Alexander Kister and Casimir
Kulikowski and Ognyan Stoyanov",
title = "Algorithmic Determination of Core Positions in the {$
V_L $} and {$ V_H $} Domains of Immunoglobulin
Molecules",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "467--477",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.467",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.467;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.467",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Grundy:1998:HDF,
author = "William Noble Grundy",
title = "Homology Detection via Family Pairwise Search",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "479--491",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.479",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.479;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.479",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Holmes:1998:DPA,
author = "Ian Holmes and Richard Durbin",
title = "Dynamic Programming Alignment Accuracy",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "493--504",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.493",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.493;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.493",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Lee:1998:ERS,
author = "Jae K. Lee and Vlado Dan{\v{c}}{\'\i}k and Michael S.
Waterman",
title = "Estimation for Restriction Sites Observed by Optical
Mapping Using Reversible-Jump {Markov} Chain {Monte}
{Carlo}",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "505--515",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.505",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.505;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.505",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Lenhof:1998:PAR,
author = "Hans-Peter Lenhof and Knut Reinert and Martin
Vingron",
title = "A Polyhedral Approach to {RNA} Sequence Structure
Alignment",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "517--530",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.517",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.517;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.517",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Reva:1998:OPS,
author = "Boris A. Reva and D. S. Rykunov and Alexei V.
Finkelstein and Jeffrey Skolnick",
title = "Optimization of Protein Structure on Lattices Using a
Self-Consistent Field Approach",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "531--538",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.531",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.531;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.531",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Sagot:1998:ISP,
author = "Marie-France Sagot and Eugene W. Myers",
title = "Identifying Satellites and Periodic Repetitions in
Biological Sequences",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "539--553",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.539",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.539;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.539",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Sankoff:1998:MGR,
author = "David Sankoff and Mathieu Blanchette",
title = "Multiple Genome Rearrangement and Breakpoint
Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "555--570",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.555",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.555;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.555",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Walker:1998:ACD,
author = "Wynn L. Walker and David S. Goodsell and Elliot M.
Landaw",
title = "An Analysis of a Class of {DNA} Sequence Reading
Molecules",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "571--583",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.571",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.571;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.571",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Wu:1998:RAM,
author = "Thomas D. Wu and Scott C. Schmidler and Trevor Hastie
and Douglas L. Brutlag",
title = "Regression Analysis of Multiple Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "585--595",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.585",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.585;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.585",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Xu:1998:ECM,
author = "Ying Xu and Dong Xu and Edward C. Uberbacher",
title = "An Efficient Computational Method for Globally Optimal
Threading1",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "3",
pages = "597--614",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.597",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.597;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.597",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Roweis:1998:SBM,
author = "Sam Roweis and Erik Winfree and Richard Burgoyne and
Nickolas V. Chelyapov and Myron F. Goodman and Paul W.
K. Rothemund and Leonard M. Adleman",
title = "A Sticker-Based Model for {DNA} Computation",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "615--629",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.615",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.615;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.615",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Sandak:1998:MBS,
author = "Bilha Sandak and Ruth Nussinov and Haim J. Wolfson",
title = "A Method for Biomolecular Structural Recognition and
Docking Allowing Conformational Flexibility",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "631--654",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.631",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.631;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.631",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Wong:1998:TRB,
author = "Wing Hung Wong and Yan Cui and Run Sheng Chen",
title = "Torsional Relaxation for Biopolymers",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "655--665",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.655",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.655;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.655",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Salzberg:1998:DTS,
author = "Steven Salzberg and Arthur L. Delcher and Kenneth H.
Fasman and John Henderson",
title = "A Decision Tree System for Finding Genes in {DNA}",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "667--680",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.667",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.667;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.667",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Guigo:1998:AGP,
author = "Roderic Guig{\'o}",
title = "Assembling Genes from Predicted Exons in Linear Time
with Dynamic Programming",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "681--702",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.681",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.681;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.681",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Mallios:1998:ISD,
author = "Ronna R. Mallios",
title = "Iterative Stepwise Discriminant Analysis: a
Meta-Algorithm for Detecting Quantitative Sequence
Motifs",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "703--711",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.703",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.703;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.703",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Evans:1998:CCP,
author = "Steven N. Evans and Xiaowen Zhou",
title = "Constructing and Counting Phylogenetic Invariants",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "713--724",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.713",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.713;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.713",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Parida:1998:UFO,
author = "Laxmi Parida",
title = "A Uniform Framework for Ordered Restriction Map
Problems",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "725--739",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.725",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.725;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.725",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Tran:1998:ECS,
author = "Nicholas Tran",
title = "An Easy Case of Sorting by Reversals",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "741--746",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.741",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.741;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.741",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Takai-Igarashi:1998:DCS,
author = "Takako Takai-Igarashi and Yoko Nadaoka and Tsuguchika
Kaminuma",
title = "A Database for Cell Signaling Networks",
journal = j-J-COMPUT-BIOL,
volume = "5",
number = "4",
pages = "747--754",
month = jan,
year = "1998",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1998.5.747",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1998.5.747;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1998.5.747",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2009",
}
@Article{Berger:1999:SSC,
author = "Bonnie Berger and Gunnar W. Hoest and James R. Paulson
and Peter W. Shor",
title = "On the Structure of the Scaffolding Core of
Bacteriophage {T4}",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "1--12",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Nayak:1999:SCH,
author = "Ashwin Nayak and Alistair Sinclair and Uri Zwick",
title = "Spatial Codes and the Hardness of String Folding
Problems",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "13--36",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.13",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.13;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.13",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Desper:1999:ITM,
author = "Richard Desper and Feng Jiang and Olli-P. Kallioniemi
and Holger Moch and Christos H. Papadimitriou and
Alejandro A. Sch{\"a}ffer",
title = "Inferring Tree Models for Oncogenesis from Comparative
Genome Hybridization Data",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "37--51",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.37",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.37;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.37",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Adleman:1999:AMC,
author = "Leonard M. Adleman and Paul W. K. Rothemund and Sam
Roweis and Erik Winfree",
title = "On Applying Molecular Computation to the {Data
Encryption Standard}",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "53--63",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.53",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/cryptography1990.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.53;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.53",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Roweis:1999:RED,
author = "Sam Roweis and Erik Winfree",
title = "On the Reduction of Errors in {DNA} Computation",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "65--75",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.65",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.65;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.65",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Sun:1999:MDS,
author = "Fengzhu Sun",
title = "Modeling {DNA} Shuffling",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "77--90",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.77",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.77;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.77",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Mott:1999:ASG,
author = "Richard Mott and Roger Tribe",
title = "Approximate Statistics of Gapped Alignments",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "91--112",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.91",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.91;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.91",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Blazewicz:1999:DSP,
author = "J. B{\l}a{\.z}ewicz and P. Formanowicz and M. Kasprzak
and W. T. Markiewicz and J. W{\c{e}}glarz",
title = "{DNA} Sequencing With Positive and Negative Errors",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "113--123",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Loewenstern:1999:SLE,
author = "David Loewenstern and Peter N. Yianilos",
title = "Significantly Lower Entropy Estimates for Natural
{DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "1",
pages = "125--142",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Istrail:1999:LSA,
author = "S. Istrail and R. Schwartz and J. King",
title = "Lattice Simulations of Aggregation Funnels for Protein
Folding",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "143--162",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Kim:1999:ASP,
author = "Sun Kim and Alberto Maria Segre",
title = "{AMASS}: a Structured Pattern Matching Approach to
Shotgun Sequence Assembly",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "163--186",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Fasulo:1999:AAM,
author = "Dan Fasulo and Tao Jiang and Richard M. Karp and
Reuben J. Settergren and Ed Thayer",
title = "An Algorithmic Approach to Multiple Complete Digest
Mapping",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "187--207",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.187",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.187;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.187",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Wang:1999:NTD,
author = "Jason T. L. Wang and Steve Rozen and Bruce A. Shapiro
and Dennis Shasha and Zhiyuan Wang and Maisheng Yin",
title = "New Techniques for {DNA} Sequence Classification",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "209--218",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Wu:1999:MRS,
author = "Thomas D. Wu and Craig G. Nevill-Manning and Douglas
L. Brutlag",
title = "Minimal-Risk Scoring Matrices for Sequence Analysis",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "219--235",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Mayraz:1999:CPM,
author = "Guy Mayraz and Ron Shamir",
title = "Construction of Physical Maps from Oligonucleotide
Fingerprints Data",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "237--252",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.237;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.237",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Yu:1999:PSS,
author = "Lihua Yu and Temple F. Smith",
title = "Positional Statistical Significance in Sequence
Alignment",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "253--259",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Churchill:1999:BRH,
author = "Gary A. Churchill and Betty Lazareva",
title = "{Bayesian} Restoration of a Hidden {Markov} Chain with
Applications to {DNA} Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "2",
pages = "261--277",
month = jan,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.1999.6.261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.1999.6.261;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.1999.6.261",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2009",
}
@Article{Istrail:1999:SRI,
author = "Sorin Istrail",
title = "Special {RECOMB'99} Issue",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "279--279",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ben-Dor:1999:CGE,
author = "Amir Ben-Dor and Ron Shamir and Zohar Yakhini",
title = "Clustering Gene Expression Patterns",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "281--297",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318274",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bienkowska:1999:PTS,
author = "Jadwiga R. Bie{\'n}kowska and Robert G. {Rogers, Jr.}
and Temple F. Smith",
title = "Performance of Threading Scoring Functions Designed
Using New Optimization Method",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "299--311",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318283",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Chew:1999:FDC,
author = "L. Paul Chew and Dan Huttenlocher and Klara Kedem and
Jon Kleinberg",
title = "Fast Detection of Common Geometric Substructure in
Proteins",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "313--325",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318292",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Dancik:1999:NPS,
author = "Vlado Dan{\v{c}}{\'\i}k and Theresa A. Addona and Karl
R. Clauser and James E. Vath and Pavel A. Pevzner",
title = "{{\em {De} Novo\/}} Peptide Sequencing via Tandem Mass
Spectrometry",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "327--342",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318300",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Forst:1999:EMN,
author = "Christian V. Forst and Klaus Schulten",
title = "Evolution of Metabolisms: a New Method for the
Comparison of Metabolic Pathways Using Genomics
Information",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "343--360",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318319",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Frieze:1999:ORS,
author = "Alan M. Frieze and Franco P. Preparata and Eli Upfal",
title = "Optimal Reconstruction of a Sequence from its Probes",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "361--368",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318328",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Huson:1999:DCF,
author = "Daniel H. Huson and Scott M. Nettles and Tandy J.
Warnow",
title = "Disk-Covering, a Fast-Converging Method for
Phylogenetic Tree Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "369--386",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318337",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Kleinberg:1999:EAP,
author = "Jon M. Kleinberg",
title = "Efficient Algorithms for Protein Sequence Design and
the Analysis of Certain Evolutionary Fitness
Landscapes",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "387--404",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318346",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lathrop:1999:ALG,
author = "Richard H. Lathrop",
title = "An Anytime Local-to-Global Optimization Algorithm for
Protein Threading in O(m$^2$ {\~n}$^2$ ) Space",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "405--418",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318355",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Pachter:1999:DBA,
author = "Lior Pachter and Serafim Batzoglou and Valentin I.
Spitkovsky and Eric Banks and Eric S. Lander and Daniel
J. Kleitman and Bonnie Berger",
title = "A Dictionary-Based Approach for Gene Annotation",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "419--430",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318364",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sankoff:1999:PIG,
author = "David Sankoff and Mathieu Blanchette",
title = "Phylogenetic Invariants for Genome Rearrangements",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "431--445",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318373",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Willett:1999:DBA,
author = "Peter Willett",
title = "Dissimilarity-Based Algorithms for Selecting
Structurally Diverse Sets of Compounds",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "447--457",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318382",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wooley:1999:TCB,
author = "John C. Wooley",
title = "Trends in Computational Biology: a Summary Based on a
{RECOMB} Plenary Lecture, 1999",
journal = j-J-COMPUT-BIOL,
volume = "6",
number = "3--4",
pages = "459--474",
month = oct,
year = "1999",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652799318391",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Reinert:2000:PSP,
author = "Gesine Reinert and Sophie Schbath and Michael S.
Waterman",
title = "Probabilistic and Statistical Properties of Words: An
Overview",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "1--46",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081360",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Schbath:2000:ENC,
author = "Sophie Schbath and Nathalie Bossard and Simon
Tavar{\'e}",
title = "The Effect of Nonhomogeneous Clone Length Distribution
on the Progress of an {STS} Mapping Project",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "47--57",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081379",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bafna:2000:LRP,
author = "Vineet Bafna and Sridhar Hannenhalli and Ken Rice and
Lisa Vawter",
title = "Ligand-Receptor Pairing Via Tree Comparison",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "59--70",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081388",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Apostolico:2000:EDU,
author = "Alberto Apostolico and Mary Ellen Bock and Stefano
Lonardi and Xuyan Xu",
title = "Efficient Detection of Unusual Words",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "71--94",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081397",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Jaakkola:2000:DFD,
author = "Tommi Jaakkola and Mark Diekhans and David Haussler",
title = "A Discriminative Framework for Detecting Remote
Protein Homologies",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "95--114",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081405",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Drasdo:2000:SLS,
author = "Dirk Drasdo and Terence Hwa and Michael L{\"a}ssig",
title = "Scaling Laws and Similarity Detection in Sequence
Alignment with Gaps",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "115--141",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081414",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wang:2000:EMR,
author = "Dai Wang and Cheng Zhao and Rong Cheng and Fengzhu
Sun",
title = "Estimation of the Mutation Rate During Error-prone
Polymerase Chain Reaction",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "143--158",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081423",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{McGuire:2000:BMD,
author = "Gr{\'a}inne McGuire and Frank Wright and Michael J.
Prentice",
title = "A {Bayesian} Model for Detecting Past Recombination
Events in {DNA} Multiple Alignments",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "159--170",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081432",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Fekete:2000:PRB,
author = "Martin Fekete and Ivo L. Hofacker and Peter F.
Stadler",
title = "Prediction of {RNA} Base Pairing Probabilities on
Massively Parallel Computers",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "171--182",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081441",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Berezovsky:2000:HRA,
author = "Igor N. Berezovsky and Natalia G. Esipova and Vladimir
G. Tumanyan",
title = "Hierarchy of Regions of Amino Acid Sequence with
Respect to Their Role in the Protein Spatial
Structure",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "183--192",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081450",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Schbath:2000:ODW,
author = "Sophie Schbath",
title = "An Overview on the Distribution of Word Counts in
{Markov} Chains",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "193--201",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081469",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zhang:2000:GAA,
author = "Zheng Zhang and Scott Schwartz and Lukas Wagner and
Webb Miller",
title = "A Greedy Algorithm for Aligning {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "203--214",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081478",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ramensky:2000:DST,
author = "V. E. Ramensky and V. Ju. Makeev and M. A. Roytberg
and V. G. Tumanyan",
title = "{DNA} Segmentation Through the {Bayesian} Approach",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "215--231",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081487",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Schmidler:2000:BSP,
author = "Scott C. Schmidler and Jun S. Liu and Douglas L.
Brutlag",
title = "{Bayesian} Segmentation of Protein Secondary
Structure",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "233--248",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081496",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Rodolphe:2000:TCM,
author = "Fran{\c{c}}ois Rodolphe and Catherine Math{\'e}",
title = "Translation Conditional Models for Protein Coding
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "249--260",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081504",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Gonnet:2000:EMM,
author = "Gaston H. Gonnet and Chantal Korostensky and Steve
Benner",
title = "Evaluation Measures of Multiple Sequence Alignments",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "261--276",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081513",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Moulton:2000:MRS,
author = "Vincent Moulton and Michael Zuker and Michael Steel
and Robin Pointon and David Penny",
title = "Metrics on {RNA} Secondary Structures",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "277--292",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081522",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Berman:2000:WSD,
author = "Piotr Berman and Zheng Zhang and Yuri I. Wolf and
Eugene V. Koonin and Webb Miller",
title = "Winnowing Sequences from a Database Search",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "293--302",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081531",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Karp:2000:AOM,
author = "Richard M. Karp and Ron Shamir",
title = "Algorithms for Optical Mapping",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "303--316",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081540",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Thayer:2000:DPC,
author = "Edward C. Thayer and Chris Bystroff and David Baker",
title = "Detection of Protein Coding Sequences Using a Mixture
Model for Local Protein Amino Acid Sequence",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "1--2",
pages = "317--327",
month = feb,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050081559",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Shamir:2000:PSR,
author = "Ron Shamir",
title = "Preface: Special {RECOMB 2000} Issue",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "329--330",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050808",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Akutsu:2000:AIB,
author = "Tatsuya Akutsu and Satoru Miyano and Satoru Kuhara",
title = "Algorithms for Identifying {Boolean} Networks and
Related Biological Networks Based on Matrix
Multiplication and Fingerprint Function",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "331--343",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050817",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Marsan:2000:AES,
author = "Laurent Marsan and Marie-France Sagot",
title = "Algorithms for Extracting Structured Motifs Using a
Suffix Tree with an Application to Promoter and
Regulatory Site Consensus Identification",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "345--362",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050826",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ohkubo:2000:PEF,
author = "Y. Zenmei Ohkubo and Gordon M. Crippen",
title = "Potential Energy Function for Continuous State Models
of Globular Proteins",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "363--379",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050835",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Apostolico:2000:OAP,
author = "Alberto Apostolico and Gill Bejerano",
title = "Optimal Amnesic Probabilistic Automata or How to Learn
and Classify Proteins in Linear Time and Space",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "381--393",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050844",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Heber:2000:CSP,
author = "Steffen Heber and Jens Stoye and Marcus Frohme and
J{\"o}rg Hoheisel and Martin Vingron",
title = "Contig Selection in Physical Mapping",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "395--408",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050853",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lyngso:2000:RPP,
author = "Rune B. Lyngs{\o} and Christian N. S. Pedersen",
title = "{RNA} Pseudoknot Prediction in Energy-Based Models",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "409--427",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050862",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Chen:2000:NPD,
author = "Kevin Chen and Dannie Durand and Martin
Farach-Colton",
title = "{NOTUNG}: a Program for Dating Gene Duplications and
Optimizing Gene Family Trees",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "429--447",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050871",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Xu:2000:CMN,
author = "Ying Xu and Dong Xu and Oakley H. Crawford and J.
Ralph Einstein",
title = "A Computational Method for {NMR-Constrained} Protein
Threading",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "449--467",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050880",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sorenson:2000:MSE,
author = "Jon M. Sorenson and Teresa Head-Gordon",
title = "Matching Simulation and Experiment: a New Simplified
Model for Simulating Protein Folding",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "469--481",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050899",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zien:2000:SIA,
author = "Alexander Zien and Ralf Zimmer and Thomas Lengauer",
title = "A Simple Iterative Approach to Parameter
Optimization",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "483--501",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050907",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ben-Dor:2000:UDT,
author = "Amir Ben-Dor and Richard Karp and Benno Schwikowski
and Zohar Yakhini",
title = "Universal {DNA} Tag Systems: a Combinatorial Design
Scheme",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "503--519",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050916",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sankoff:2000:EEE,
author = "David Sankoff and David Bryant and M{\'e}lanie
Deneault and B. Franz Lang and Gertraud Burger",
title = "Early Eukaryote Evolution Based on Mitochondrial Gene
Order Breakpoints",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "521--535",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050925",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bailey-Kellogg:2000:NJA,
author = "Chris Bailey-Kellogg and Alik Widge and John J. Kelley
and Marcelo J. Berardi and John H. Bushweller and Bruce
Randall Donald",
title = "The {NOESY} Jigsaw: Automated Protein Secondary
Structure and Main-Chain Assignment from Sparse,
Unassigned {NMR} Data",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "537--558",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050934",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ben-Dor:2000:TCG,
author = "Amir Ben-Dor and Laurakay Bruhn and Nir Friedman and
Iftach Nachman and Mich{\`e}l Schummer and Zohar
Yakhini",
title = "Tissue Classification with Gene Expression Profiles",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "559--583",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050943",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Hart:2000:SFA,
author = "Reece K. Hart and Ajay K. Royyuru and Gustavo
Stolovitzky and Andrea Califano",
title = "Systematic and Fully Automated Identification of
Protein Sequence Patterns",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "585--600",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050952",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Friedman:2000:UBN,
author = "Nir Friedman and Michal Linial and Iftach Nachman and
Dana Pe'er",
title = "Using {Bayesian} Networks to Analyze Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "601--620",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050961",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Preparata:2000:SHI,
author = "Franco P. Preparata and Eli Upfal",
title = "Sequencing-by-Hybridization at the Information-Theory
Bound: an Optimal Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "621--630",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050970",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Anonymous:2000:ATF,
author = "Anonymous",
title = "Abstracts from {TIGR's Fourth Annual Conference on
Computational Genomics November 16--19, 2000 Baltimore,
MD}",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "3--4",
pages = "631--651",
month = aug,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652700750050989",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lermen:2000:PUA,
author = "Martin Lermen and Knut Reinert",
title = "The Practical Use of the {$ A* $} Algorithm for Exact
Multiple Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "5",
pages = "655--671",
month = oct,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701446134",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701446134;
https://www.liebertpub.com/doi/pdf/10.1089/106652701446134",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Stoyanov:2000:GIC,
author = "Ognyan Stoyanov and Alexander Kister and Israel
Gelfand and Casimir Kulikowski and Cyrus Chothia",
title = "Geometric Invariant Core for the {$ C_L $} and
{$C$}$_{H 1}$ Domains of Immunoglobulin Molecules",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "5",
pages = "673--684",
month = oct,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701446143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701446143;
https://www.liebertpub.com/doi/pdf/10.1089/106652701446143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Eidhammer:2000:SCS,
author = "Ingvar Eidhammer and Inge Jonassen and William R.
Taylor",
title = "Structure Comparison and Structure Patterns",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "5",
pages = "685--716",
month = oct,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701446152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701446152;
https://www.liebertpub.com/doi/pdf/10.1089/106652701446152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Cawley:2000:DST,
author = "Simon E. Cawley and Terence P. Speed",
title = "{DNA} Sequencing with Transposons",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "5",
pages = "717--729",
month = oct,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701446161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701446161;
https://www.liebertpub.com/doi/pdf/10.1089/106652701446161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Makarenkov:2000:CAT,
author = "Vladimir Makarenkov and Bruno Leclerc",
title = "Comparison of Additive Trees Using Circular Orders",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "5",
pages = "731--744",
month = oct,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701446170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701446170;
https://www.liebertpub.com/doi/pdf/10.1089/106652701446170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Karp:2000:ACD,
author = "Richard M. Karp and Itsik Pe'er and Ron Shamir",
title = "An Algorithm Combining Discrete and Continuous Methods
for Optical Mapping",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "5",
pages = "745--760",
month = oct,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701446189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701446189;
https://www.liebertpub.com/doi/pdf/10.1089/106652701446189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Muller:2000:MAA,
author = "Tobias M{\"u}ller and Martin Vingron",
title = "Modeling Amino Acid Replacement",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "761--776",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514918",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514918;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514918",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Pevzner:2000:MTP,
author = "Pavel A. Pevzner and Vlado Dan{\v{c}}{\'\i}k and Chris
L. Tang",
title = "Mutation-Tolerant Protein Identification by Mass
Spectrometry",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "777--787",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514927",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514927;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514927",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Desper:2000:DBR,
author = "Richard Desper and Feng Jiang and Olli-P. Kallioniemi
and Holger Moch and Christos H. Papadimitriou and
Alejandro A. Sch{\"a}ffer",
title = "Distance-Based Reconstruction of Tree Models for
Oncogenesis",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "789--803",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514936",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514936;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514936",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ideker:2000:TDE,
author = "Trey Ideker and Vesteinn Thorsson and Andrew F. Siegel
and Leroy E. Hood",
title = "Testing for Differentially-Expressed Genes by
Maximum-Likelihood Analysis of Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "805--817",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514945",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514945;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514945",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Kerr:2000:AVG,
author = "M. Kathleen Kerr and Mitchell Martin and Gary A.
Churchill",
title = "Analysis of Variance for Gene Expression Microarray
Data",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "819--837",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514954",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514954;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514954",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Faulhammer:2000:FEL,
author = "Dirk Faulhammer and Richard J. Lipton and Laura F.
Landweber",
title = "Fidelity of Enzymatic Ligation for {DNA} Computing",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "839--848",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514963",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514963;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514963",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Mian:2000:RRA,
author = "I. S. Mian and I. Dubchak",
title = "Representing and Reasoning about Protein Families
Using Generative and Discriminative Methods",
journal = j-J-COMPUT-BIOL,
volume = "7",
number = "6",
pages = "849--862",
month = dec,
year = "2000",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270050514972",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270050514972;
https://www.liebertpub.com/doi/pdf/10.1089/10665270050514972",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Landau:2001:AAT,
author = "Gad M. Landau and Jeanette P. Schmidt and Dina Sokol",
title = "An Algorithm for Approximate Tandem Repeats",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "1",
pages = "1--18",
month = feb,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300099038",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300099038;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300099038",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bailey-Kellogg:2001:RMD,
author = "Chris Bailey-Kellogg and John J. Kelleyiii and Cliff
Stein and Bruce Randall Donald",
title = "Reducing Mass Degeneracy in {SAR} by {MS} by Stable
Isotopic Labeling",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "1",
pages = "19--36",
month = feb,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300099056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300099056;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300099056",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Newton:2001:DVE,
author = "M. A. Newton and C. M. Kendziorski and C. S. Richmond
and F. R. Blattner and K. W. Tsui",
title = "On Differential Variability of Expression Ratios:
Improving Statistical Inference about Gene Expression
Changes from Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "1",
pages = "37--52",
month = feb,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300099074",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300099074;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300099074",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Liben-Nowell:2001:SSD,
author = "David Liben-Nowell",
title = "On the Structure of Syntenic Distance",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "1",
pages = "53--67",
month = feb,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300099092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300099092;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300099092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wang:2001:PPN,
author = "Lusheng Wang and Kaizhong Zhang and Louxin Zhang",
title = "Perfect Phylogenetic Networks with Recombination",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "1",
pages = "69--78",
month = feb,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300099119",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300099119;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300099119",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Charleston:2001:HHP,
author = "Michael A. Charleston",
title = "Hitch-Hiking: a Parallel Heuristic Search Strategy,
Applied to the Phylogeny Problem",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "1",
pages = "79--91",
month = feb,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300099137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:46:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300099137;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300099137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Leibowitz:2001:MGE,
author = "Nathaniel Leibowitz and Ruth Nussinov and Haim J.
Wolfson",
title = "{MUSTA} --- a General, Efficient, Automated Method for
Multiple Structure Alignment and Detection of Common
Motifs: Application to Proteins",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "2",
pages = "93--121",
month = apr,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300312896",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300312896;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300312896",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Gilbert:2001:ETC,
author = "Peter B. Gilbert and Vladimir A. Novitsky and Monty A.
Montano and Max Essex",
title = "An Efficient Test for Comparing Sequence Diversity
between Two Populations",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "2",
pages = "123--139",
month = apr,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300312904",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300312904;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300312904",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Hubbell:2001:MSH,
author = "Earl Hubbell",
title = "Multiplex Sequencing by Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "2",
pages = "141--149",
month = apr,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300312913",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300312913;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300312913",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Elhai:2001:DBR,
author = "Jeff Elhai",
title = "Determination of Bias in the Relative Abundance of
Oligonucleotides in {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "2",
pages = "151--175",
month = apr,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300312922",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300312922;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300312922",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Dewey:2001:SAA,
author = "T. Gregory Dewey",
title = "A Sequence Alignment Algorithm with an Arbitrary Gap
Penalty Function",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "2",
pages = "177--190",
month = apr,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300312931",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300312931;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300312931",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zhao:2001:RIU,
author = "Hongyu Zhao and Feng Liang",
title = "On Relationship Inference Using Gamete Identity by
Descent Data",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "2",
pages = "191--200",
month = apr,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701300312940",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701300312940;
https://www.liebertpub.com/doi/pdf/10.1089/106652701300312940",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Marathe:2001:CDW,
author = "Amit Marathe and Anne E. Condon and Robert M. Corn",
title = "On Combinatorial {DNA} Word Design",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "201--219",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530818",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530818;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530818",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Gu:2001:MMF,
author = "Xun Gu",
title = "Mathematical Modeling for Functional Divergence after
Gene Duplication",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "221--234",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530827",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530827;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530827",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Nicodeme:2001:FAM,
author = "Pierre Nicod{\`e}me",
title = "Fast Approximate Motif Statistics",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "235--248",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530836",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530836;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530836",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Yu:2001:SSP,
author = "Yi-Kuo Yu and Terence Hwa",
title = "Statistical Significance of Probabilistic Sequence
Alignment and Related Local Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "249--282",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530845",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530845;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530845",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Horton:2001:TBB,
author = "Paul Horton",
title = "{Tsukuba BB}: a Branch and Bound Algorithm for Local
Multiple Alignment of {DNA} and Protein Sequences",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "283--303",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530854",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530854;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530854",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Gusfield:2001:IHS,
author = "Dan Gusfield",
title = "Inference of Haplotypes from Samples of Diploid
Populations: Complexity and Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "305--323",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530863",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530863;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530863",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Chen:2001:DPA,
author = "Ting Chen and Ming-Yang Kao and Matthew Tepel and John
Rush and George M. Church",
title = "A Dynamic Programming Approach to {De} {Novo} Peptide
Sequencing via Tandem Mass Spectrometry",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "325--337",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530872",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530872;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530872",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Searls:2001:JGL,
author = "David B. Searls",
title = "From {\em {Jabberwocky}\/} to Genome: {Lewis Carroll}
and Computational Biology",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "3",
pages = "339--348",
month = jun,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270152530881",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270152530881;
https://www.liebertpub.com/doi/pdf/10.1089/10665270152530881",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Robin:2001:NCS,
author = "St{\'e}phane Robin and Sophie Schbath",
title = "Numerical Comparison of Several Approximations of the
Word Count Distribution in Random Sequences",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "349--359",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236179;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236179",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ben-Dor:2001:CPS,
author = "A. Ben-Dor and I. Pe'er and R. Shamir and R. Sharan",
title = "On the Complexity of Positional Sequencing by
Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "361--371",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236188;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Mercier:2001:EDL,
author = "S. Mercier and J. J. Daudin",
title = "Exact Distribution for the Local Score of One i.i.d.
Random Sequence",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "373--380",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236197;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Devauchelle:2001:RMA,
author = "C. Devauchelle and A. Grossmann and A. H{\'e}naut and
M. Holschneider and M. Monnerot and J. L. Risler and B.
Torr{\'e}sani",
title = "Rate Matrices for Analyzing Large Families of Protein
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "381--399",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236205",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236205;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236205",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Husmeier:2001:DRD,
author = "Dirk Husmeier and Frank Wright",
title = "Detection of Recombination in {DNA} Multiple
Alignments with Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "401--427",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236214",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236214;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236214",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wahde:2001:MGR,
author = "Mattias Wahde and John Hertz",
title = "Modeling Genetic Regulatory Dynamics in Neural
Development",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "429--442",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236223",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236223;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236223",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Goryachev:2001:UMD,
author = "Andrew B. Goryachev and Pascale F. Macgregor and Aled
M. Edwards",
title = "Unfolding of Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "4",
pages = "443--461",
month = sep,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701752236232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701752236232;
https://www.liebertpub.com/doi/pdf/10.1089/106652701752236232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Kruglyak:2001:NES,
author = "Semyon Kruglyak and Haixu Tang",
title = "A New Estimator of Significance of Correlation in Time
Series Data",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "5",
pages = "463--470",
month = oct,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753216486",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753216486;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753216486",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lin:2001:AAS,
author = "Kuang Lin and Alex C. W. May and William R. Taylor",
title = "Amino Acid Substitution Matrices from an Artificial
Neural Network Model",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "5",
pages = "471--481",
month = oct,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753216495",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753216495;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753216495",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bader:2001:LTA,
author = "David A. Bader and Bernard M. E. Moret and Mi Yan",
title = "A Linear-Time Algorithm for Computing Inversion
Distance between Signed Permutations with an
Experimental Study",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "5",
pages = "483--491",
month = oct,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753216503",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753216503;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753216503",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Muggleton:2001:GRU,
author = "S. H. Muggleton and C. H. Bryant and A. Srinivasan and
A. Whittaker and S. Topp and C. Rawlings",
title = "Are Grammatical Representations Useful for Learning
from Biological Sequence Data? --- a Case Study",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "5",
pages = "493--521",
month = oct,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753216512",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753216512;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753216512",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Williams:2001:CGO,
author = "Glenn A. Williams and Jonathan M. Dugan and Russ B.
Altman",
title = "Constrained Global Optimization for Estimating
Molecular Structure from Atomic Distances",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "5",
pages = "523--547",
month = oct,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753216521",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753216521;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753216521",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Storey:2001:AVL,
author = "John D. Storey and David Siegmund",
title = "Approximate {$P$}-Values for Local Sequence
Alignments: Numerical Studies",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "5",
pages = "549--556",
month = oct,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753216530",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753216530;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753216530",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Rocke:2001:MME,
author = "David M. Rocke and Blythe Durbin",
title = "A Model for Measurement Error for Gene Expression
Arrays",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "6",
pages = "557--569",
month = nov,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753307485",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753307485;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753307485",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Chen:2001:AIP,
author = "Ting Chen and Jacob D. Jaffe and George M. Church",
title = "Algorithms for Identifying Protein Cross-Links via
Tandem Mass Spectrometry",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "6",
pages = "571--583",
month = nov,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753307494",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753307494;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753307494",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Theilhaber:2001:BEF,
author = "Joachim Theilhaber and Steven Bushnell and Amanda
Jackson and Rainer Fuchs",
title = "{Bayesian} Estimation of Fold-Changes in the Analysis
of Gene Expression: The {PFOLD} Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "6",
pages = "585--614",
month = nov,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753307502",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753307502;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753307502",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Just:2001:CCM,
author = "Winfried Just",
title = "Computational Complexity of Multiple Sequence
Alignment with {SP-Score}",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "6",
pages = "615--623",
month = nov,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753307511",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753307511;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753307511",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wolfinger:2001:AGS,
author = "Russell D. Wolfinger and Greg Gibson and Elizabeth D.
Wolfinger and Lee Bennett and Hisham Hamadeh and Pierre
Bushel and Cynthia Afshari and Richard S. Paules",
title = "Assessing Gene Significance from {cDNA} Microarray
Expression Data via Mixed Models",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "6",
pages = "625--637",
month = nov,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753307520",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753307520;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753307520",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Baggerly:2001:IDE,
author = "Keith A. Baggerly and Kevin R. Coombes and Kenneth R.
Hess and David N. Stivers and Lynne V. Abruzzo and Wei
Zhang",
title = "Identifying Differentially Expressed Genes in {cDNA}
Microarray Experiments",
journal = j-J-COMPUT-BIOL,
volume = "8",
number = "6",
pages = "639--659",
month = nov,
year = "2001",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652701753307539",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652701753307539;
https://www.liebertpub.com/doi/pdf/10.1089/106652701753307539",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sengupta:2002:QCM,
author = "Rimli Sengupta and Martin Tompa",
title = "Quality Control in Manufacturing Oligo Arrays: a
Combinatorial Design Approach",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "1--22",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833163;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Rajasekaran:2002:ECP,
author = "S. Rajasekaran and X. Jin and J. L. Spouge",
title = "The Efficient Computation of Position-Specific Match
Scores with the Fast {Fourier} Transform",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "23--33",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833172;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sorenson:2002:PES,
author = "Jon M. Sorenson and Teresa Head-Gordon",
title = "Protein Engineering Study of Protein {L} by
Simulation",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "35--54",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833181;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Kooperberg:2002:IBC,
author = "Charles Kooperberg and Thomas G. Fazzio and Jeffrey J.
Delrow and Toshio Tsukiyama",
title = "Improved Background Correction for Spotted {DNA}
Microarrays",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "55--66",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833190",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833190;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833190",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{deJong:2002:MSG,
author = "Hidde de Jong",
title = "Modeling and Simulation of Genetic Regulatory Systems:
a Literature Review",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "67--103",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833208",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833208;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833208",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Dougherty:2002:ICA,
author = "Edward R. Dougherty and Junior Barrera and Marcel Brun
and Seungchan Kim and Roberto M. Cesar and Yidong Chen
and Michael Bittner and Jeffrey M. Trent",
title = "Inference from Clustering with Application to
Gene-Expression Microarrays",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "105--126",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833217;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Kim:2002:SFS,
author = "Seungchan Kim and Edward R. Dougherty and Junior
Barrera and Yidong Chen and Michael L. Bittner and
Jeffrey M. Trent",
title = "Strong Feature Sets from Small Samples",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "1",
pages = "127--146",
month = jan,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252833226",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252833226;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252833226",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lengauer:2002:PSR,
author = "Thomas Lengauer",
title = "Preface: Special {RECOMB 2001} Issue",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "147--148",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935386",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/10665270252935386",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Amato:2002:UMP,
author = "Nancy M. Amato and Guang Song",
title = "Using Motion Planning to Study Protein Folding
Pathways",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "149--168",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935395",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935395;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935395",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Barash:2002:CSB,
author = "Yoseph Barash and Nir Friedman",
title = "Context-Specific {Bayesian} Clustering for Gene
Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "169--191",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935403",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935403;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935403",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bilu:2002:AFP,
author = "Yonatan Bilu and Michal Linial",
title = "The Advantage of Functional Prediction Based on
Clustering of Yeast Genes and Its Correlation with
Non-Sequence Based Classifications",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "193--210",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935412",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935412;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935412",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Blanchette:2002:APF,
author = "Mathieu Blanchette and Benno Schwikowski and Martin
Tompa",
title = "Algorithms for Phylogenetic Footprinting",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "211--223",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935421",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935421;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935421",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Buhler:2002:FMU,
author = "Jeremy Buhler and Martin Tompa",
title = "Finding Motifs Using Random Projections",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "225--242",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935430",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935430;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935430",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bundschuh:2002:RSE,
author = "Ralf Bundschuh",
title = "Rapid Significance Estimation in Local Sequence
Alignment with Gaps",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "243--260",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935449",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935449;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935449",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Cowen:2002:PBH,
author = "Lenore Cowen and Phil Bradley and Matthew Menke and
Jonathan King and Bonnie Berger",
title = "Predicting the Beta-Helix Fold from Protein Sequence
Data",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "261--276",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935458",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935458;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935458",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Csuros:2002:FRE,
author = "Mikl{\'o}s Csur{\"o}s",
title = "Fast Recovery of Evolutionary Trees with Thousands of
Nodes",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "277--297",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935467",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935467;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935467",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Efrat:2002:GAA,
author = "Alon Efrat and Frank Hoffmann and Klaus Kriegel and
Christof Schultz and Carola Wenk",
title = "Geometric Algorithms for the Analysis of
{$2$D}-Electrophoresis Gels",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "299--315",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935476",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935476;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935476",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Filkov:2002:ATM,
author = "Vladimir Filkov and Steven Skiena and Jizu Zhi",
title = "Analysis Techniques for Microarray Time-Series Data",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "317--330",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935485",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935485;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935485",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Friedman:2002:SEA,
author = "Nir Friedman and Matan Ninio and Itsik Pe'er and Tal
Pupko",
title = "A Structural {EM} Algorithm for Phylogenetic
Inference",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "331--353",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935494",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935494;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935494",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Frieze:2002:OSH,
author = "Alan M. Frieze and Bjarni V. Halld{\'o}rsson",
title = "Optimal Sequencing by Hybridization in Rounds",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "355--369",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935502",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935502;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935502",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Jiang:2002:GED,
author = "Tao Jiang and Guohui Lin and Bin Ma and Kaizhong
Zhang",
title = "A General Edit Distance between {RNA} Structures",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "371--388",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935511",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935511;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935511",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Pachter:2002:AGP,
author = "Lior Pachter and Marina Alexandersson and Simon
Cawley",
title = "Applications of Generalized Pair Hidden {Markov}
Models to Alignment and Gene Finding Problems",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "389--399",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935520",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935520;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935520",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Pavlidis:2002:LGF,
author = "Paul Pavlidis and Jason Weston and Jinsong Cai and
William Stafford Noble",
title = "Learning Gene Functional Classifications from Multiple
Data Types",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "401--411",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935539",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935539;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935539",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Shamir:2002:LSS,
author = "Ron Shamir and Dekel Tsur",
title = "Large Scale Sequencing by Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "413--428",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935548",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935548;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935548",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Tang:2002:ZFG,
author = "Mengxiang Tang and Michael Waterman and Shibu
Yooseph",
title = "Zinc Finger Gene Clusters and Tandem Gene
Duplication",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "429--446",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935557",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935557;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935557",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Thijs:2002:GSM,
author = "Gert Thijs and Kathleen Marchal and Magali Lescot and
Stephane Rombauts and Bart {De Moor} and Pierre
Rouz{\'e} and Yves Moreau",
title = "A {Gibbs} Sampling Method to Detect Overrepresented
Motifs in the Upstream Regions of Coexpressed Genes",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "2",
pages = "447--464",
month = apr,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270252935566",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270252935566;
https://www.liebertpub.com/doi/pdf/10.1089/10665270252935566",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Berloff:2002:SMC,
author = "Natalia Berloff and Markus Perola and Kenneth Lange",
title = "Spline Methods for the Comparison of Physical and
Genetic Maps",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "465--475",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138565",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138565;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138565",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Shen:2002:SPA,
author = "Shi-Yi Shen and Jun Yang and Adam Yao and Pei-Ing
Hwang",
title = "Super Pairwise Alignment {(SPA)}: an Efficient
Approach to Global Alignment for Homologous Sequences",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "477--486",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138574",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138574;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138574",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zhang:2002:AIC,
author = "Jian Zhang",
title = "Analysis of Information Content for Biological
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "487--503",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138583",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138583;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138583",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Radmacher:2002:PCP,
author = "Michael D. Radmacher and Lisa M. McShane and Richard
Simon",
title = "A Paradigm for Class Prediction Using Gene Expression
Profiles",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "505--511",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138592",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138592;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138592",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Clark:2002:CAG,
author = "Terry Clark and Sanggyu Lee and L. Ridgway Scott and
San Ming Wang",
title = "Computational Analysis of Gene Identification with
{SAGE}",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "513--526",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138600",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138600;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138600",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sung:2002:CEP,
author = "Myong-Hee Sung and Yingdong Zhao and Roland Martin and
Richard Simon",
title = "{T}-Cell Epitope Prediction with Combinatorial Peptide
Libraries",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "527--539",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138619",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138619;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138619",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Nebel:2002:CPR,
author = "Markus E. Nebel",
title = "Combinatorial Properties of {RNA} Secondary
Structures",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "541--573",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138628",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138628;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138628",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bailey:2002:EES,
author = "Timothy L. Bailey and Michael Gribskov",
title = "Estimating and Evaluating the Statistics of Gapped
Local-Alignment Scores",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "575--593",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138637",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760138637;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760138637",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Anonymous:2002:Ca,
author = "Anonymous",
title = "Correction",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "3",
pages = "594--595",
month = jun,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760138646",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/106652702760138646",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Althaus:2002:CAP,
author = "Ernst Althaus and Oliver Kohlbacher and Hans-Peter
Lenhof and Peter M{\"u}ller",
title = "A Combinatorial Approach to Protein Docking with
Flexible Side Chains",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "597--612",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277336",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760277336;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760277336",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Yanikoglu:2002:MEC,
author = "Berrin Yanikoglu and Burak Erman",
title = "Minimum Energy Configurations of the $2$-Dimensional
{HP-Model} of Proteins by Self-Organizing Networks",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "613--620",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277345",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760277345;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760277345",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Horng:2002:RSD,
author = "Jorng-Tzong Horng and Hsien-Da Huang and Ming-Hui Jin
and Li-Cheng Wu and Shir-Ly Huang",
title = "The Repetitive Sequence Database and Mining Putative
Regulatory Elements in Gene Promoter Regions",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "621--640",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277354",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760277354;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760277354",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Mercatanti:2002:MPA,
author = "Alberto Mercatanti and Giuseppe Rainaldi and Laura
Mariani and Roberto Marangoni and Lorenzo Citti",
title = "A Method for Prediction of Accessible Sites on an
{mRNA} Sequence for Target Selection of Hammerhead
Ribozymes",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "641--653",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277363",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760277363;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760277363",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Coombes:2002:IQS,
author = "Kevin R. Coombes and W. Edward Highsmith and Tammy A.
Krogmann and Keith A. Baggerly and David N. Stivers and
Lynne V. Abruzzo",
title = "Identifying and Quantifying Sources of Variation in
Microarray Data Using High-Density {cDNA} Membrane
Arrays",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "655--669",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277372",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760277372;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760277372",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Broet:2002:BHM,
author = "Philippe Bro{\"e}t and Sylvia Richardson and
Fran{\c{c}}ois Radvanyi",
title = "{Bayesian} Hierarchical Model for Identifying Changes
in Gene Expression from Microarray Experiments",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "671--683",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277381",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702760277381;
https://www.liebertpub.com/doi/pdf/10.1089/106652702760277381",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Anonymous:2002:Cb,
author = "Anonymous",
title = "Correction",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "4",
pages = "685--685",
month = aug,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702760277390",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/106652702760277390",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Desper:2002:FAP,
author = "Richard Desper and Olivier Gascuel",
title = "Fast and Accurate Phylogeny Reconstruction Algorithms
Based on the Minimum-Evolution Principle",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "5",
pages = "687--705",
month = oct,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702761034136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702761034136;
https://www.liebertpub.com/doi/pdf/10.1089/106652702761034136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Narasimhan:2002:MPS,
author = "Giri Narasimhan and Changsong Bu and Yuan Gao and
Xuning Wang and Ning Xu and Kalai Mathee",
title = "Mining Protein Sequences for Motifs",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "5",
pages = "707--720",
month = oct,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702761034145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702761034145;
https://www.liebertpub.com/doi/pdf/10.1089/106652702761034145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Aspnes:2002:CTP,
author = "James Aspnes and Julia Hartling and Ming-Yang Kao and
Junhyong Kim and Gauri Shah",
title = "A Combinatorial Toolbox for Protein Sequence Design
and Landscape Analysis in the Grand Canonical Model",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "5",
pages = "721--741",
month = oct,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702761034154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702761034154;
https://www.liebertpub.com/doi/pdf/10.1089/106652702761034154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Meidanis:2002:LBR,
author = "Jo{\~a}o Meidanis and Maria M. T. Walter and Zanoni
Dias",
title = "A Lower Bound on the Reversal and Transposition
Diameter",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "5",
pages = "743--745",
month = oct,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702761034163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702761034163;
https://www.liebertpub.com/doi/pdf/10.1089/106652702761034163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Spang:2002:NAR,
author = "Rainer Spang and Marc Rehmsmeier and Jens Stoye",
title = "A Novel Approach to Remote Homology Detection: Jumping
Alignments",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "5",
pages = "747--760",
month = oct,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652702761034172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652702761034172;
https://www.liebertpub.com/doi/pdf/10.1089/106652702761034172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Robin:2002:OPS,
author = "S. Robin and J.-J. Daudin and H. Richard and M.-F.
Sagot and S. Schbath",
title = "Occurrence Probability of Structured Motifs in Random
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "761--773",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518254",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518254;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518254",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Eskin:2002:USM,
author = "Eleazar Eskin and William Stafford Noble and Yoram
Singer",
title = "Using Substitution Matrices to Estimate Probability
Distributions for Biological Sequences",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "775--791",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518263",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518263;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518263",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ljungberg:2002:EAQ,
author = "Kajsa Ljungberg and Sverker Holmgren and {\"O}rjan
Carlborg",
title = "Efficient Algorithms for Quantitative Trait Loci
Mapping Problems",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "793--804",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518272",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518272;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518272",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{York:2002:BEN,
author = "Thomas L. York and Richard Durrett and Rasmus
Nielsen",
title = "{Bayesian} Estimation of the Number of Inversions in
the History of Two Chromosomes",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "805--818",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518281",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518281;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518281",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Raje:2002:DFR,
author = "D. V. Raje and H. J. Purohit and R. N. Singh",
title = "Distinguishing Features of 16S {rDNA} Gene for Five
Dominating Bacterial Genus Observed in Bioremediation",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "819--829",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518290",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518290;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518290",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Piau:2002:MRS,
author = "Didier Piau",
title = "Mutation--Replication Statistics of Polymerase Chain
Reactions",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "831--847",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518308",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518308;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518308",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Doniger:2002:PCP,
author = "Scott Doniger and Thomas Hofmann and Joanne Yeh",
title = "Predicting {CNS} Permeability of Drug Molecules:
Comparison of Neural Network and Support Vector Machine
Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "9",
number = "6",
pages = "849--864",
month = dec,
year = "2002",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270260518317",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/10665270260518317;
https://www.liebertpub.com/doi/pdf/10.1089/10665270260518317",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lu:2003:SAN,
author = "Bingwen Lu and Ting Chen",
title = "A Suboptimal Algorithm for {{\em {De} Novo\/}} Peptide
Sequencing via Tandem Mass Spectrometry",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "1--12",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255633",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255633;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255633",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Schwartz:2003:RIH,
author = "Russell Schwartz and Bjarni V. Halld{\'o}rsson and
Vineet Bafna and Andrew G. Clark and Sorin Istrail",
title = "Robustness of Inference of Haplotype Block Structure",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "13--19",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255642",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255642;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255642",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Liu:2003:CCA,
author = "Agatha H. Liu and Andrea Califano",
title = "{CASTOR}: Clustering Algorithm for Sequence
Taxonomical Organization and Relationships",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "21--45",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255651",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255651;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255651",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Li:2003:IPS,
author = "Xueliang Li and Zimao Li and Lusheng Wang",
title = "The Inverse Problems for Some Topological Indices in
Combinatorial Chemistry",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "47--55",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255660",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255660;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255660",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Oliveira:2003:CMI,
author = "Joseph S. Oliveira and Colin G. Bailey and Janet B.
Jones-Oliveira and David A. Dixon and Dean W. Gull and
Mary L. Chandler",
title = "A Computational Model for the Identification of
Biochemical Pathways in the {Krebs} Cycle",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "57--82",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255679",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255679;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255679",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Chattopadhyay:2003:TCP,
author = "Sujay Chattopadhyay and Jayprokas Chakrabarti",
title = "Temporal Changes in Phosphoglycerate Kinase Coding
Sequences: a Quantitative Measure",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "83--93",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255688",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255688;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255688",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Aastrand:2003:CNO,
author = "Magnus {\AA}strand",
title = "Contrast Normalization of Oligonucleotide Arrays",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "1",
pages = "95--102",
month = feb,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703763255697",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703763255697;
https://www.liebertpub.com/doi/pdf/10.1089/106652703763255697",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Myers:2003:TDF,
author = "Gene Myers and Richard Durbin",
title = "A Table-Driven, Full-Sensitivity Similarity Search
Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "103--117",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825919",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825919;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825919",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Mukherjee:2003:EDS,
author = "Sayan Mukherjee and Pablo Tamayo and Simon Rogers and
Ryan Rifkin and Anna Engle and Colin Campbell and Todd
R. Golub and Jill P. Mesirov",
title = "Estimating Dataset Size Requirements for Classifying
{DNA} Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "119--142",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825928",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825928;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825928",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lai:2003:MPM,
author = "Yinglei Lai and Deepali Shinde and Norman Arnheim and
Fengzhu Sun",
title = "The Mutation Process of Microsatellites During the
Polymerase Chain Reaction",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "143--155",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825937",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825937;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825937",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Yang:2003:SMA,
author = "Yaning Yang and Josephine Hoh and Clemens Broger and
Martin Neeb and Joanne Edington and Klaus Lindpaintner
and Jurg Ott",
title = "Statistical Methods for Analyzing Microarray Feature
Data with Replications",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "157--169",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825946",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825946;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825946",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wan:2003:DSR,
author = "Honghui Wan and Lugang Li and Scott Federhen and John
C. Wootton",
title = "Discovering Simple Regions in Biological Sequences
Associated with Scoring Schemes",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "171--185",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825955",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825955;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825955",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Eskin:2003:PFC,
author = "Eleazar Eskin and William Stafford Noble and Yoram
Singer",
title = "Protein Family Classification Using Sparse {Markov}
Transducers",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "187--213",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825964",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825964;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825964",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Penchovsky:2003:DLD,
author = "Robert Penchovsky and J{\"o}rg Ackermann",
title = "{DNA} Library Design for Molecular Computation",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "215--229",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825973",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825973;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825973",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Hwang:2003:ETP,
author = "F. K. Hwang and Y. C. Liu",
title = "Error-Tolerant Pooling Designs with Inhibitors",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "2",
pages = "231--236",
month = apr,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703321825982",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703321825982;
https://www.liebertpub.com/doi/pdf/10.1089/106652703321825982",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Myers:2003:SRI,
author = "Eugene W. Myers",
title = "Special {RECOMB 2002} Issue",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "237--237",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360687995",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Amato:2003:UMP,
author = "Nancy M. Amato and Ken A. Dill and Guang Song",
title = "Using Motion Planning to Map Protein Folding
Landscapes and Analyze Folding Kinetics of Known Native
Structures",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "239--255",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Apaydin:2003:SRS,
author = "Mehmet Serkan Apaydin and Douglas L. Brutlag and
Carlos Guestrin and David Hsu and Jean-Claude Latombe
and Chris Varma",
title = "Stochastic Roadmap Simulation: an Efficient
Representation and Algorithm for Analyzing Molecular
Motion",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "257--281",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688011",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Apostolico:2003:MSL,
author = "Alberto Apostolico and Mary Ellen Bock and Stefano
Lonardi",
title = "Monotony of Surprise and Large-Scale Quest for Unusual
Words",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "283--311",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Arndt:2003:DSE,
author = "Peter F. Arndt and Christopher B. Burge and Terence
Hwa",
title = "{DNA} Sequence Evolution with Neighbor-Dependent
Mutation",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "313--322",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688039",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bafna:2003:HPP,
author = "Vineet Bafna and Dan Gusfield and Giuseppe Lancia and
Shibu Yooseph",
title = "Haplotyping as Perfect Phylogeny: a Direct Approach",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "323--340",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688048",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Bar-Joseph:2003:CRT,
author = "Ziv Bar-Joseph and Georg K. Gerber and David K.
Gifford and Tommi S. Jaakkola and Itamar Simon",
title = "Continuous Representations of Time-Series Gene
Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "341--356",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688057",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Berard:2003:CM,
author = "S{\`e}verine B{\'e}rard and Eric Rivals",
title = "Comparison of Minisatellites",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "357--372",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ben-Dor:2003:DLS,
author = "Amir Ben-Dor and Benny Chor and Richard Karp and Zohar
Yakhini",
title = "Discovering Local Structure in Gene Expression Data:
The Order-Preserving Submatrix Problem",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "373--384",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688075",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ben-Dor:2003:RSP,
author = "Amir Ben-Dor and Richard M. Karp and Benno Schwikowski
and Ron Shamir",
title = "The Restriction Scaffold Problem",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "385--398",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Buhler:2003:PSI,
author = "Jeremy Buhler",
title = "Provably Sensitive Indexing Strategies for Biosequence
Similarity Search",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "399--417",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688093",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Cohen:2003:NSA,
author = "Barry Cohen and Steven Skiena",
title = "Natural Selection and Algorithmic Design of {mRNA}",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "419--432",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Dror:2003:BET,
author = "Ron O. Dror and Jonathan G. Murnick and Nicola J.
Rinaldi and Voichita D. Marinescu and Ryan M. Rifkin
and Richard A. Young",
title = "{Bayesian} Estimation of Transcript Levels Using a
General Model of Array Measurement Noise",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "433--452",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688110",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Durand:2003:TGC,
author = "Dannie Durand and David Sankoff",
title = "Tests for Gene Clustering",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "453--482",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Halperin:2003:HLT,
author = "Eran Halperin and Shay Halperin and Tzvika Hartman and
Ron Shamir",
title = "Handling Long Targets and Errors in Sequencing by
Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "483--497",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688138",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Heath:2003:SHC,
author = "Samuel A. Heath and Franco P. Preparata and Joel
Young",
title = "Sequencing by Hybridization by Cooperating Direct and
Reverse Spectra",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "499--508",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lam:2003:PAS,
author = "Fumei Lam and Marina Alexandersson and Lior Pachter",
title = "Picking Alignments from ({Steiner}) Trees",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "509--520",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Langmead:2003:PIR,
author = "Christopher James Langmead and Anthony K. Yan and C.
Robertson McClung and Bruce Randall Donald",
title = "Phase-Independent Rhythmic Analysis of Genome-Wide
Expression Patterns",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "521--536",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Li:2003:SIM,
author = "Jia Li and Webb Miller",
title = "Significance of Interspecies Matches when Evolutionary
Rate Varies",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "537--554",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Mumey:2003:NMM,
author = "Brendan M. Mumey and Brian W. Bailey and Bonnie
Kirkpatrick and Algirdas J. Jesaitis and Thomas Angel
and Edward A. Dratz",
title = "A New Method for Mapping Discontinuous Antibody
Epitopes to Reveal Structural Features of Proteins",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "555--567",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688183",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ott:2003:SAA,
author = "Jurg Ott and Josephine Hoh",
title = "Set Association Analysis of {SNP} Case-Control and
Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "569--574",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688192",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Siepel:2003:AES,
author = "Adam C. Siepel",
title = "An Algorithm to Enumerate Sorting Reversals for Signed
Permutations",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "575--597",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688200",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sinha:2003:DM,
author = "Saurabh Sinha",
title = "Discriminative Motifs",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "599--615",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Teodoro:2003:UPF,
author = "Miguel L. Teodoro and George N. {Phillips, Jr.} and
Lydia E. Kavraki",
title = "Understanding Protein Flexibility through
Dimensionality Reduction",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "617--634",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wildenberg:2003:DSV,
author = "Andy Wildenberg and Steven Skiena and Pavel Sumazin",
title = "Deconvolving Sequence Variation in Mixed {DNA}
Populations",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "635--652",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zien:2003:MHM,
author = "Alexander Zien and Juliane Fluck and Ralf Zimmer and
Thomas Lengauer",
title = "Microarrays: How Many Do You Need?",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "3--4",
pages = "653--667",
month = jun,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/10665270360688246",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Mossel:2003:IRA,
author = "Elchanan Mossel",
title = "On the Impossibility of Reconstructing Ancestral Data
and Phylogenies",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "669--676",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539015",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539015;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539015",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Chung:2003:DMB,
author = "Fan Chung and Linyuan Lu and T. Gregory Dewey and
David J. Galas",
title = "Duplication Models for Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "677--687",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539024;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Michailidis:2003:ARB,
author = "George Michailidis and Kerby Shedden",
title = "The Application of Rule-Based Methods to Class
Prediction Problems in Genomics",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "689--698",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539033",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539033;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539033",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wang:2003:RTI,
author = "Yonghong Wang and Hongyu Ou and Fengbiao Guo",
title = "Recognition of Translation Initiation Sites of
Eukaryotic Genes Based on an {EM} Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "699--708",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539042;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lu:2003:TCO,
author = "Wei-Fu Lu and Wen-Lian Hsu",
title = "A Test for the Consecutive Ones Property on Noisy Data
--- Application to Physical Mapping and Sequence
Assembly",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "709--735",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539051;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539051",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Jonsson:2003:AML,
author = "Henrik J{\"o}nsson and Bo S{\"o}derberg",
title = "An Approximate Maximum Likelihood Approach, Applied to
Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "737--749",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539060",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539060;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539060",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Faller:2003:NDM,
author = "D. Faller and H. U. Voss and J. Timmer and U. Hobohm",
title = "Normalization of {DNA-Microarray} Data by Nonlinear
Correlation Maximization",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "751--762",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539079",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539079;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539079",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Piccolboni:2003:CFC,
author = "Antonio Piccolboni and Dan Gusfield",
title = "On the Complexity of Fundamental Computational
Problems in Pedigree Analysis",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "763--773",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539088",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539088;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539088",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Heath:2003:SSS,
author = "Lenwood S. Heath and John Paul C. Vergara",
title = "Sorting by Short Swaps",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "775--789",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539097;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539097",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Pisanti:2003:PMP,
author = "N. Pisanti and R. Marangoni and P. Ferragina and A.
Frangioni and A. Savona and C. Pisanelli and F.
Luccio",
title = "{PaTre}: a Method for Paralogy Trees Construction",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "5",
pages = "791--802",
month = oct,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322539105",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322539105;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322539105",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zhang:2003:EPA,
author = "Yu Zhang and Michael S. Waterman",
title = "An {Eulerian} Path Approach to Global Multiple
Alignment for {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "803--819",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756096;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Shatkay:2003:MBL,
author = "Hagit Shatkay and Ronen Feldman",
title = "Mining the Biomedical Literature in the Genomic Era:
An Overview",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "821--855",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756104",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756104;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756104",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Liao:2003:CPS,
author = "Li Liao and William Stafford Noble",
title = "Combining Pairwise Sequence Similarity and Support
Vector Machines for Detecting Remote Protein
Evolutionary and Structural Relationships",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "857--868",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756113;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lunter:2003:EAS,
author = "G. A. Lunter and I. Mikl{\'o}s and Y. S. Song and J.
Hein",
title = "An Efficient Algorithm for Statistical Multiple
Alignment on Arbitrary Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "869--889",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756122;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Kerr:2003:LMM,
author = "M. Kathleen Kerr",
title = "Linear Models for Microarray Data Analysis: Hidden
Similarities and Differences",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "891--901",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756131",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756131;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756131",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Navarro:2003:FSC,
author = "Gonzalo Navarro and Mathieu Raffinot",
title = "Fast and Simple Character Classes and Bounded Gaps
Pattern Matching, with Applications to Protein
Searching",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "903--923",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756140",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756140;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756140",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Lilien:2003:PDC,
author = "Ryan H. Lilien and Hany Farid and Bruce R. Donald",
title = "Probabilistic Disease Classification of
Expression-Dependent Proteomic Data from Mass
Spectrometry of Human Serum",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "925--946",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756159",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756159;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756159",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Deng:2003:PPF,
author = "Minghua Deng and Kui Zhang and Shipra Mehta and Ting
Chen and Fengzhu Sun",
title = "Prediction of Protein Function Using Protein--Protein
Interaction Data",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "947--960",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756168",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756168;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756168",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Segal:2003:RAM,
author = "Mark R. Segal and Kam D. Dahlquist and Bruce R.
Conklin",
title = "Regression Approaches for Microarray Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "961--980",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756177",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756177;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756177",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Ieong:2003:PRS,
author = "Samuel Ieong and Ming-Yang Kao and Tak-Wah Lam and
Wing-Kin Sung and Siu-Ming Yiu",
title = "Predicting {RNA} Secondary Structures with Arbitrary
Pseudoknots by Maximizing the Number of Stacking
Pairs",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "981--995",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756186",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756186;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756186",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Veerassamy:2003:TPM,
author = "Shalini Veerassamy and Andrew Smith and Elisabeth R.
M. Tillier",
title = "A Transition Probability Model for Amino Acid
Substitutions from Blocks",
journal = j-J-COMPUT-BIOL,
volume = "10",
number = "6",
pages = "997--1010",
month = dec,
year = "2003",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652703322756195",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652703322756195;
https://www.liebertpub.com/doi/pdf/10.1089/106652703322756195",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Huang:2004:DLS,
author = "Haiyan Huang and Ming-Chih J. Kao and Xianghong Zhou
and Jun S. Liu and Wing H. Wong",
title = "Determination of Local Statistical Significance of
Patterns in {Markov} Sequences with Application to
Promoter Element Identification",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "1--14",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416858",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416858;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416858",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Apostolico:2004:IPM,
author = "Alberto Apostolico and Laxmi Parida",
title = "Incremental Paradigms of Motif Discovery",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "15--25",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416867",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416867;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416867",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Caprara:2004:OPS,
author = "Alberto Caprara and Robert Carr and Sorin Istrail and
Giuseppe Lancia and Brian Walenz",
title = "1001 Optimal {PDB} Structure Alignments: Integer
Programming Methods for Finding the Maximum Contact Map
Overlap",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "27--52",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416876",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416876;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416876",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wagner:2004:RPL,
author = "Andreas Wagner",
title = "Reconstructing Pathways in Large Genetic Networks from
Genetic Perturbations",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "53--60",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416885",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416885;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416885",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Spiro:2004:LAM,
author = "Peter A. Spiro and Natasa Macura",
title = "A Local Alignment Metric for Accelerating Biosequence
Database Search",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "61--82",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416894",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416894;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416894",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Shatsky:2004:FAF,
author = "Maxim Shatsky and Ruth Nussinov and Haim J. Wolfson",
title = "{FlexProt}: Alignment of Flexible Protein Structures
Without a Predefinition of Hinge Regions",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "83--106",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416902",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416902;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416902",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Cheung:2004:URS,
author = "Leo Wang-Kit Cheung",
title = "Use of Runs Statistics for Pattern Recognition in
Genomic {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "107--124",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416911",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416911;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416911",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Sung:2004:GCE,
author = "Myong-Hee Sung and Richard Simon",
title = "Genomewide Conserved Epitope Profiles of {HIV-1}
Predicted by Biophysical Properties of {MHC} Binding
Peptides",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "125--145",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416920",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416920;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416920",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Zhou:2004:GCB,
author = "Xiaobo Zhou and Xiaodong Wang and Edward R. Dougherty
and Daniel Russ and Edward Suh",
title = "Gene Clustering Based on Clusterwide Mutual
Information",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "147--161",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416939",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416939;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416939",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Adamiak:2004:AAN,
author = "R. W. Adamiak and J. Blazewicz and P. Formanowicz and
Z. Gdaniec and M. Kasprzak and M. Popenda and M.
Szachniuk",
title = "An Algorithm for an Automatic {NOE} Pathways Analysis
of {$2$D} {NMR} Spectra of {RNA} Duplexes",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "163--179",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416948",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416948;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416948",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Wistrand:2004:TPP,
author = "Markus Wistrand and Erik L. L. Sonnhammer",
title = "Transition Priors for Protein Hidden {Markov} Models:
An Empirical Study towards Maximum Discrimination",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "181--193",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416957",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416957;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416957",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Makarenkov:2004:PTR,
author = "Vladimir Makarenkov and Pierre Legendre",
title = "From a Phylogenetic Tree to a Reticulated Network",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "1",
pages = "195--212",
month = jan,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/106652704773416966",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/106652704773416966;
https://www.liebertpub.com/doi/pdf/10.1089/106652704773416966",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2004",
}
@Article{Miller:2004:SRI,
author = "Webb Miller and Martin Vingron",
title = "Special {RECOMB 2003} Issue",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "213--213",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410427",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Li:2004:EVD,
author = "Wentian Li and Fengzhu Sun and Ivo Grosse",
title = "Extreme Value Distribution Based Gene Selection
Criteria for Discriminant Microarray Data Analysis
Using Logistic Regression",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "215--226",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410445",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Krishnapuram:2004:JCF,
author = "Balaji Krishnapuram and Lawrence Carin and Alexander
J. Hartemink",
title = "Joint Classifier and Feature Optimization for
Comprehensive Cancer Diagnosis Using Gene Expression
Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "227--242",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410463",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Yeang:2004:PNM,
author = "Chen-Hsiang Yeang and Trey Ideker and Tommi Jaakkola",
title = "Physical Network Models",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "243--262",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410382",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Fishelson:2004:OEG,
author = "Maayan Fishelson and Dan Geiger",
title = "Optimizing Exact Genetic Linkage Computations",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "263--275",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410409",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Langmead:2004:PTN,
author = "Christopher James Langmead and Anthony Yan and Ryan
Lilien and Lincong Wang and Bruce Randall Donald",
title = "A Polynomial-Time Nuclear Vector Replacement Algorithm
for Automated {NMR} Resonance Assignments",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "277--298",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410436",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Lotan:2004:APS,
author = "Itay Lotan and Fabian Schwarzer",
title = "Approximation of Protein Structure for Fast Similarity
Measures",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "299--317",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410355",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Kellis:2004:MCG,
author = "Manolis Kellis and Nick Patterson and Bruce Birren and
Bonnie Berger and Eric S. Lander",
title = "Methods in Comparative Genomics: Genome
Correspondence, Gene Identification and Regulatory
Motif Discovery",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "319--355",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410319",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Tanay:2004:MMI,
author = "Amos Tanay and Ron Shamir",
title = "Multilevel Modeling and Inference of Transcription
Regulation",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "357--375",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410364",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Yeo:2004:MEM,
author = "Gene Yeo and Christopher B. Burge",
title = "Maximum Entropy Modeling of Short Sequence Motifs with
Applications to {RNA} Splicing Signals",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "377--394",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410418",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Roskin:2004:SFD,
author = "Krishna M. Roskin and Mark Diekhans and David
Haussler",
title = "Score Functions for Determining Regional Conservation
in Two-Species Local Alignments",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "395--411",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410328",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Siepel:2004:CPH,
author = "Adam Siepel and David Haussler",
title = "Combining Phylogenetic and Hidden {Markov} Models in
Biosequence Analysis",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "413--428",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410472",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Kahng:2004:SHD,
author = "Andrew B. Kahng and Ion I. M{\u{a}}ndoiu and Pavel A.
Pevzner and Sherief Reda and Alexander Z. Zelikovsky",
title = "Scalable Heuristics for Design of {DNA} Probe Arrays",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "429--447",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410391",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Akutsu:2004:EEM,
author = "Tatsuya Akutsu",
title = "Efficient Extraction of Mapping Rules of Atoms from
Enzymatic Reaction Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "449--462",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410337",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Deng:2004:IPM,
author = "Minghua Deng and Ting Chen and Fengzhu Sun",
title = "An Integrated Probabilistic Model for Functional
Prediction of Proteins",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "463--475",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410346",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Ben-Dor:2004:TOM,
author = "Amir Ben-Dor and Tzvika Hartman and Richard M. Karp
and Benno Schwikowski and Roded Sharan and Zohar
Yakhini",
title = "Towards Optimally Multiplexed Applications of
Universal Arrays",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "476--492",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410373",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Greenspan:2004:MBI,
author = "Gideon Greenspan and Dan Geiger",
title = "Model-Based Inference of Haplotype Block Variation",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "493--504",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410300",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Li:2004:HRS,
author = "Lei M. Li and Jong Hyun Kim and Michael S. Waterman",
title = "Haplotype Reconstruction from {SNP} Alignment",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "2--3",
pages = "505--516",
month = mar,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/1066527041410454",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2004",
}
@Article{Benham:2004:ASI,
author = "Craig J. Benham and Chengpeng Bi",
title = "The Analysis of Stress-Induced Duplex Destabilization
in Long Genomic {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "519--543",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.519",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.519;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.519",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Janes:2004:CSR,
author = "Kevin A. Janes and Jason R. Kelly and Suzanne Gaudet
and John G. Albeck and Peter K. Sorger and Douglas A.
Lauffenburger",
title = "Cue-Signal-Response Analysis of {TNF-Induced}
Apoptosis by Partial Least Squares Regression of
Dynamic Multivariate Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "544--561",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.544",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.544;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.544",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Wu:2004:MPM,
author = "Rongling Wu and Chang-Xing Ma and George Casella",
title = "A Mixed Polyploid Model for Linkage Analysis in
Outcrossing Tetraploids Using a Pseudo-Test Backcross
Design",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "562--580",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.562",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.562;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.562",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Helman:2004:BNC,
author = "Paul Helman and Robert Veroff and Susan R. Atlas and
Cheryl Willman",
title = "A {Bayesian} Network Classification Methodology for
Gene Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "581--615",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.581",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.581;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.581",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Booth:2004:ESA,
author = "Hilary S. Booth and John H. Maindonald and Susan R.
Wilson and Jill E. Gready",
title = "An Efficient {$Z$}-Score Algorithm for Assessing
Sequence Alignments",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "616--625",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.616",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.616;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.616",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Levy:2004:CDD,
author = "Dan Levy and Mariel Vazquez and Michael Cornforth and
Bradford Loucas and Rainer K. Sachs and Javier
Arsuaga",
title = "Comparing {DNA} Damage-Processing Pathways by Computer
Analysis of Chromosome Painting Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "626--641",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.626",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.626;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.626",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Ku:2004:CLL,
author = "Jason Ku and Xiao-Jiang Feng and Herschel Rabitz",
title = "Closed-Loop Learning Control of Bio-Networks",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "642--659",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.642",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.642;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.642",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Giurcarneanu:2004:FIG,
author = "Ciprian Doru Giurc{\u{a}}rneanu and Ioan
T{\u{a}}bu{\c{s}} and Jaakko Astola and Juha Ollila and
Mauno Vihinen",
title = "Fast Iterative Gene Clustering Based on Information
Theoretic Criteria for Selecting the Cluster
Structure",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "660--682",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.660",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.660;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.660",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Zhihua:2004:TQP,
author = "Lin Zhihua and Wu Yuzhang and Zhu Bo and Ni Bing and
Wang Li",
title = "Toward the Quantitative Prediction of {T}-Cell
Epitopes: {QSAR} Studies on Peptides Having Affinity
with the Class {I} {MHC} Molecular {HLA-A*0201}",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "683--694",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.683",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.683;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.683",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Bergemann:2004:SDA,
author = "T. L. Bergemann and R. J. Laws and F. Quiaoit and L.
P. Zhao",
title = "A Statistically Driven Approach for Image Segmentation
and Signal Extraction in {cDNA} Microarrays",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "695--713",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.695",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.695;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.695",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Wang:2004:SSI,
author = "Sue-Jane Wang and James J. Chen",
title = "Sample Size for Identifying Differentially Expressed
Genes in Microarray Experiments",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "714--726",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.714",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.714;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.714",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Galtier:2004:MMM,
author = "N. Galtier and A. Jean-Marie",
title = "{Markov}-Modulated {Markov} Chains and the Covarion
Process of Molecular Evolution",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "727--733",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.727",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.727;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.727",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Roberts:2004:PSA,
author = "Michael Roberts and Brian R. Hunt and James A. Yorke
and Randall A. Bolanos and Arthur L. Delcher",
title = "A Preprocessor for Shotgun Assembly of Large Genomes",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "734--752",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.734",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.734;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.734",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Preparata:2004:DSH,
author = "Franco P. Preparata and John S. Oliver",
title = "{DNA} Sequencing by Hybridization Using
Semi-Degenerate Bases",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "753--765",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.753",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.753;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.753",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Berman:2004:FOG,
author = "Piotr Berman and Paul Bertone and Bhaskar Dasgupta and
Mark Gerstein and Ming-Yang Kao and Michael Snyder",
title = "Fast Optimal Genome Tiling with Applications to
Microarray Design and Homology Search",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "4",
pages = "766--785",
month = aug,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.766",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.766;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.766",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Jia:2004:NSF,
author = "Yuting Jia and T. Gregory Dewey and Ilya N. Shindyalov
and Philip E. Bourne",
title = "A New Scoring Function and Associated Statistical
Significance for Structure Alignment by {CE}",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "787--799",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.787",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.787;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.787",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Shatkay:2004:TEA,
author = "Hagit Shatkay and Jason Miller and Clark Mobarry and
Michael Flanigan and Shibu Yooseph and Granger Sutton",
title = "{ThurGood}: Evaluating Assembly-to-Assembly Mapping",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "800--811",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.800",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.800;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.800",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Oliveira:2004:HTA,
author = "Joseph S. Oliveira and Janet B. Jones-Oliveira and
David A. Dixon and Colin G. Bailey and Dean W. Gull",
title = "Hyperdigraph-Theoretic Analysis of the {EGFR}
Signaling Network: Initial Steps Leading to {GTP:Ras}
Complex Formation",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "812--842",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.812",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.812;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.812",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Heger:2004:ADV,
author = "Andreas Heger and Michael Lappe and Liisa Holm",
title = "Accurate Detection of Very Sparse Sequence Motifs",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "843--857",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.843",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.843;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.843",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Bafna:2004:NEC,
author = "Vineet Bafna and Dan Gusfield and Sridhar Hannenhalli
and Shibu Yooseph",
title = "A Note on Efficient Computation of Haplotypes via
Perfect Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "858--866",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.858",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.858;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.858",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Bejerano:2004:EEV,
author = "Gill Bejerano and Nir Friedman and Naftali Tishby",
title = "Efficient Exact $p$-Value Computation for Small
Sample, Sparse, and Surprising Categorical Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "867--886",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.867",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.867;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.867",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Figueroa:2004:CBF,
author = "Andres Figueroa and James Borneman and Tao Jiang",
title = "Clustering Binary Fingerprint Vectors with Missing
Values for {DNA} Array Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "887--901",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.887",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.887;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.887",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Lotan:2004:ADS,
author = "Itay Lotan and Fabian Schwarzer and Dan Halperin and
Jean-Claude Latombe",
title = "Algorithm and Data Structures for Efficient Energy
Maintenance during {Monte Carlo} Simulation of
Proteins",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "902--932",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.902",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.902;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.902",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Alkan:2004:RUC,
author = "Can Alkan and Evan E. Eichler and Jeffrey A. Bailey
and S. Cenk {\c{S}}ahinalp and Eray T{\"u}z{\"u}n",
title = "The Role of Unequal Crossover in Alpha-Satellite {DNA}
Evolution: a Computational Analysis",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "933--944",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.933",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.933;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.933",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Smith:2004:TQC,
author = "Kaleigh Smith and Mike Hallett",
title = "Towards Quality Control for {DNA} Microarrays",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "945--970",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.945",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.945;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.945",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Bay:2004:TAB,
author = "S. D. Bay and L. Chrisman and A. Pohorille and J.
Shrager",
title = "Temporal Aggregation Bias and Inference of Causal
Regulatory Networks",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "971--985",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.971",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.971;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.971",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Ye:2004:AMP,
author = "Jieping Ye and Ravi Janardan",
title = "Approximate Multiple Protein Structure Alignment Using
the Sum-of-Pairs Distance",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "986--1000",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.986",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.986;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.986",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Csuros:2004:PGI,
author = "Mikl{\'o}s Cs{\"u}r{\"o}s and Aleksandar
Milosavljevic",
title = "Pooled Genomic Indexing {(PGI)}: Analysis and Design
of Experiments",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "5",
pages = "1001--1021",
month = oct,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2004",
}
@Article{Nuel:2004:LSL,
author = "G. Nuel",
title = "{LD-SPatt}: Large Deviations Statistics for Patterns
on {Markov} Chains",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1023--1033",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Gat-Viks:2004:MAH,
author = "Irit Gat-Viks and Amos Tanay and Ron Shamir",
title = "Modeling and Analysis of Heterogeneous Regulation in
Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1034--1049",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1034",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1034;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1034",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Eres:2004:PPD,
author = "Revital Eres and Gad M. Landau and Laxmi Parida",
title = "Permutation Pattern Discovery in Biosequences",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1050--1060",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1050",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1050;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1050",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Comin:2004:PCM,
author = "Matteo Comin and Concettina Guerra and Giuseppe
Zanotti",
title = "{PROuST}: a Comparison Method of Three-Dimensional
Structures of Proteins Using Indexing Techniques",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1061--1072",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1061",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1061;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1061",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Bhattacharyya:2004:RSH,
author = "C. Bhattacharyya and L. R. Grate and M. I. Jordan and
L. {El Ghaoui} and I. S. Mian",
title = "Robust Sparse Hyperplane Classifiers: Application to
Uncertain Molecular Profiling Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1073--1089",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Chiappetta:2004:BSS,
author = "P. Chiappetta and M. C. Roubaud and B. Torr{\'e}sani",
title = "Blind Source Separation and the Analysis of Microarray
Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1090--1109",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Bocker:2004:SCU,
author = "Sebastian B{\"o}cker",
title = "Sequencing from Compomers: Using Mass Spectrometry for
{DNA} {\em de novo\/} Sequencing of 200+ nt",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1110--1134",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1110",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1110;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1110",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Dejori:2004:IIP,
author = "Math{\"a}us Dejori and Martin Stetter",
title = "Identifying Interventional and Pathogenic Mechanisms
by Generative Inverse Modeling of Gene Expression
Profiles",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1135--1148",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1135;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1135",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Palazoglu:2004:FDP,
author = "Ahmet Palazoglu and Attila Gursoy and Yaman Arkun and
Burak Erman",
title = "Folding Dynamics of Proteins from Denatured to Native
State: Principal Component Analysis",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1149--1168",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Barash:2004:SDS,
author = "Danny Barash",
title = "Spectral Decomposition for the Search and Analysis of
{RNA} Secondary Structure",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1169--1174",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1169",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1169;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1169",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Ge:2004:EBS,
author = "Nanxiang Ge and Charles B. Epstein",
title = "An Empirical {Bayesian} Significance Test of {cDNA}
Library Data",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1175--1188",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1175",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1175;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1175",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Conklin:2004:RHC,
author = "Darrell Conklin",
title = "Recognition of the Helical Cytokine Fold",
journal = j-J-COMPUT-BIOL,
volume = "11",
number = "6",
pages = "1189--1200",
month = dec,
year = "2004",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2004.11.1189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2004.11.1189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2004.11.1189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2005",
}
@Article{Rodin:2005:MGE,
author = "Andrei Rodin and Thomas H. {Mosley, Jr.} and Andrew G.
Clark and Charles F. Sing and Eric Boerwinkle",
title = "Mining Genetic Epidemiology Data with {Bayesian}
Networks Application to {\em {APOE}\/} Gene Variation
and Plasma Lipid Levels",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "1--11",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Yona:2005:URH,
author = "Golan Yona and Klara Kedem",
title = "The {URMS-RMS} Hybrid Algorithm for Fast and Sensitive
Local Protein Structure Alignment",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "12--32",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.12",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.12;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.12",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Nedelec:2005:PAA,
author = "Elodie N{\'e}d{\'e}lec and Thomas Moncion and
Elisabeth Gassiat and Bruno Bossard and Guillemette
Duchateau-Nguyen and Alain Denise and Michel Termier",
title = "A Pairwise Alignment Algorithm Which Favors Clusters
of Blocks",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "33--47",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.33",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.33;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.33",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Zwolak:2005:PEM,
author = "Jason W. Zwolak and John J. Tyson and Layne T.
Watson",
title = "Parameter Estimation for a Mathematical Model of the
Cell Cycle in Frog Eggs",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "48--63",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.48",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.48;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.48",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Blekas:2005:MBP,
author = "Konstantinos Blekas and Dimitrios I. Fotiadis and
Aristidis Likas",
title = "Motif-Based Protein Sequence Classification Using
Neural Networks",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "64--82",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.64",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.64;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.64",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Clote:2005:EAC,
author = "P. Clote",
title = "An Efficient Algorithm to Compute the Landscape of
Locally Optimal {RNA} Secondary Structures with Respect
to the {Nussinov--Jacobson} Energy Model",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "83--101",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.83",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.83;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.83",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Lin:2005:EAS,
author = "Ying Chih Lin and Chin Lung Lu and Hwan-You Chang and
Chuan Yi Tang",
title = "An Efficient Algorithm for Sorting by
Block-Interchanges and Its Application to the Evolution
of Vibrio Species",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "1",
pages = "102--112",
month = feb,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2005",
}
@Article{Pradines:2005:APL,
author = "Jo{\"e}l R. Pradines and Victor Farutin and Steve
Rowley and Vlado Dan{\v{c}}{\'\i}k",
title = "Analyzing Protein Lists with Large Networks:
Edge-Count Probabilities in Random Graphs with Given
Expected Degrees",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "113--128",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Chen:2005:MRP,
author = "Zhi-Zhong Chen and Guohui Lin and Romeo Rizzi and
Jianjun Wen and Dong Xu and Ying Xu and Tao Jiang",
title = "More Reliable Protein {NMR} Peak Assignment via
Improved $2$-Interval Scheduling",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "129--146",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Song:2005:CMA,
author = "Yun S. Song and Jotun Hein",
title = "Constructing Minimal Ancestral Recombination Graphs",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "147--169",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Li:2005:EBP,
author = "Lei M. Li and Henry Horng-Shing Lu",
title = "Explore Biological Pathways from Noisy Array Data by
Directed Acyclic {Boolean} Networks",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "170--185",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.170;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Hobolth:2005:AHM,
author = "Asger Hobolth and Jens Ledet Jensen",
title = "Applications of Hidden {Markov} Models for
Characterization of Homologous {DNA} Sequences with a
Common Gene",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "186--203",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.186",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.186;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.186",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Sturmfels:2005:TIPa,
author = "Bernd Sturmfels and Seth Sullivant",
title = "Toric Ideals of Phylogenetic Invariants",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "204--228",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.204",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.204;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.204",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Xing:2005:SMC,
author = "Biao Xing and Mark J. van der Laan",
title = "A Statistical Method for Constructing Transcriptional
Regulatory Networks Using Gene Expression and Sequence
Data",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "229--246",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.229",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.229;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.229",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Nov:2005:MAP,
author = "Yuval Nov and Lawrence M. Wein",
title = "Modeling and Analysis of Protein Design under Resource
Constraints",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "2",
pages = "247--282",
month = mar,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.247",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.247;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.247",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2005",
}
@Article{Wendl:2005:PAC,
author = "Michael C. Wendl",
title = "Probabilistic Assessment of Clone Overlaps in {DNA}
Fingerprint Mapping via a Priori Models",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "3",
pages = "283--297",
month = apr,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.283",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.283;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.283",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2005",
}
@Article{Jia:2005:RPM,
author = "Yuting Jia and T. Gregory Dewey",
title = "A Random Polymer Model of the Statistical Significance
of Structure Alignment",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "3",
pages = "298--313",
month = apr,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.298",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.298;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.298",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2005",
}
@Article{Hertzberg:2005:FMP,
author = "Libi Hertzberg and Or Zuk and Gad Getz and Eytan
Domany",
title = "Finding Motifs in Promoter Regions",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "3",
pages = "314--330",
month = apr,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.314",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.314;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.314",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2005",
}
@Article{Leung:2005:NCP,
author = "Ming-Ying Leung and Kwok Pui Choi and Aihua Xia and
Louis H. Y. Chen",
title = "Nonrandom Clusters of Palindromes in Herpesvirus
Genomes",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "3",
pages = "331--354",
month = apr,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.331",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.331;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.331",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2005",
}
@Article{Wagner:2005:LRM,
author = "Michael Wagner and Rafa{\l} Adamczak and Aleksey
Porollo and Jaros{\l}aw Meller",
title = "Linear Regression Models for Solvent Accessibility
Prediction in Proteins",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "3",
pages = "355--369",
month = apr,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.355",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.355;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.355",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2005",
}
@Article{Li:2005:EHT,
author = "Lang Li and Huidong Shi and Constantin Yiannoutsos and
Tim Hui-Ming Huang and Kenneth P. Nephew",
title = "Epigenetic Hypothesis Tests for Methylation and
Acetylation in a Triple Microarray System",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "3",
pages = "370--390",
month = apr,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.370",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.370;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.370",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2005",
}
@Article{Zhang:2005:BNI,
author = "Dabao Zhang and Martin T. Wells and Christine D. Smart
and William E. Fry",
title = "{Bayesian} Normalization and Identification for
Differential Gene Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "4",
pages = "391--406",
month = may,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.391",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.391;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.391",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2005",
}
@Article{Lippert:2005:SEW,
author = "Ross A. Lippert",
title = "Space-Efficient Whole Genome Comparisons with
{Burrows--Wheeler} Transforms",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "4",
pages = "407--415",
month = may,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.407",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.407;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.407",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2005",
}
@Article{Keich:2005:SFA,
author = "Uri Keich",
title = "{sFFT}: a Faster Accurate Computation of the $p$-Value
of the Entropy Score",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "4",
pages = "416--430",
month = may,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.416",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.416;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.416",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2005",
}
@Article{Linhart:2005:DPD,
author = "Chaim Linhart and Ron Shamir",
title = "The Degenerate Primer Design Problem: Theory and
Applications",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "4",
pages = "431--456",
month = may,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.431",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.431;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.431",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2005",
}
@Article{Sturmfels:2005:TIPb,
author = "Bernd Sturmfels and Seth Sullivant",
title = "Toric Ideals of Phylogenetic Invariants",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "4",
pages = "457--481",
month = may,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.457",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.457;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.457",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2005",
}
@Article{Pounds:2005:SDE,
author = "Stan Pounds and Cheng Cheng",
title = "Statistical Development and Evaluation of Microarray
Gene Expression Data Filters",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "4",
pages = "482--495",
month = may,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.482",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.482;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.482",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2005",
}
@Article{Dew:2005:TAM,
author = "Ian M. Dew and Brian Walenz and Granger Sutton",
title = "A Tool for Analyzing Mate Pairs in Assemblies
{(TAMPA)}",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "5",
pages = "497--513",
month = jun,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.497",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.497;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.497",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 June 2005",
}
@Article{Sharan:2005:MSG,
author = "Roded Sharan and Jens Gramm and Zohar Yakhini and Amir
Ben-Dor",
title = "Multiplexing Schemes for Generic {SNP} Genotyping
Assays",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "5",
pages = "514--533",
month = jun,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.514",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.514;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.514",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 June 2005",
}
@Article{Berrar:2005:STA,
author = "Daniel Berrar and Brian Sturgeon and Ian Bradbury and
C. Stephen Downes and Werner Dubitzky",
title = "Survival Trees for Analyzing Clinical Outcome in Lung
Adenocarcinomas Based on Gene Expression Profiles:
Identification of Neogenin and Diacylglycerol Kinase $
\alpha $ Expression as Critical Factors",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "5",
pages = "534--544",
month = jun,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.534",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.534;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.534",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 June 2005",
}
@Article{Dehnert:2005:GPB,
author = "Manuel Dehnert and Rainer Plaumann and Werner E. Helm
and Marc-Th. H{\"u}tt",
title = "Genome Phylogeny Based on Short-Range Correlations in
{DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "5",
pages = "545--553",
month = jun,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.545",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.545;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.545",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 June 2005",
}
@Article{Schuemie:2005:WSD,
author = "Martijn J. Schuemie and Jan A. Kors and Barend Mons",
title = "Word Sense Disambiguation in the Biomedical Domain: An
Overview",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "5",
pages = "554--565",
month = jun,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.554",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.554;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.554",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 June 2005",
}
@Article{Gusfield:2005:PSR,
author = "Dan Gusfield",
title = "Preface: Special {RECOMB 2004} Issue",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "567--568",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.567",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.567",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Bailey-Kellogg:2005:RGA,
author = "Chris Bailey-Kellogg and Sheetal Chainraj and Gopal
Pandurangan",
title = "A Random Graph Approach to {NMR} Sequential
Assignment",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "569--583",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.569",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.569;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.569",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Beerenwinkel:2005:LME,
author = "Niko Beerenwinkel and J{\"o}rg Rahnenf{\"u}hrer and
Martin D{\"a}umer and Daniel Hoffmann and Rolf Kaiser
and Joachim Selbig and Thomas Lengauer",
title = "Learning Multiple Evolutionary Pathways from
Cross-Sectional Data",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "584--598",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.584",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.584;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.584",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Chatterji:2005:LMO,
author = "Sourav Chatterji and Lior Pachter",
title = "Large Multiple Organism Gene Finding by Collapsed
{Gibbs} Sampling",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "599--608",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.599",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.599;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.599",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Erdmann:2005:PSK,
author = "Michael A. Erdmann",
title = "Protein Similarity from Knot Theory: Geometric
Convolution and Line Weavings",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "609--637",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.609",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.609;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.609",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{He:2005:ICG,
author = "Xin He and Michael H. Goldwasser",
title = "Identifying Conserved Gene Clusters in the Presence of
Homology Families",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "638--656",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.638",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.638;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.638",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Huan:2005:CGR,
author = "Jun Huan and Deepak Bandyopadhyay and Wei Wang and
Jack Snoeyink and Jan Prins and Alexander Tropsha",
title = "Comparing Graph Representations of Protein Structure
for Mining Family-Specific Residue-Based Packing
Motifs",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "657--671",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.657",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.657;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.657",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Ledent:2005:CHM,
author = "Sabrina Ledent and St{\'e}phane Robin",
title = "Checking Homogeneity of Motifs' Distribution in
Heterogeneous Sequences",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "672--685",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.672",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.672;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.672",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Leung:2005:FMI,
author = "Henry C. M. Leung and Francis Y. L. Chin and S. M. Yiu
and Roni Rosenfeld and W. W. Tsang",
title = "Finding Motifs with Insufficient Number of Strong
Binding Sites",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "686--701",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.686",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.686;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.686",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Li:2005:CEK,
author = "Haifeng Li and Tao Jiang",
title = "A Class of Edit Kernels for {SVMs} to Predict
Translation Initiation Sites in Eukaryotic {mRNAs}",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "702--718",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.702",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.702;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.702",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Li:2005:CMR,
author = "Jing Li and Tao Jiang",
title = "Computing the Minimum Recombinant Haplotype
Configuration from Incomplete Genotype Data on a
Pedigree by Integer Linear Programming",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "719--739",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.719",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.719;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.719",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Lilien:2005:NEB,
author = "Ryan H. Lilien and Brian W. Stevens and Amy C.
Anderson and Bruce R. Donald",
title = "A Novel Ensemble-Based Scoring and Search Algorithm
for Protein Redesign and Its Application to Modify the
Substrate Specificity of the {Gramicidin} Synthetase
{A} Phenylalanine Adenylation Enzyme",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "740--761",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.740",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.740;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.740",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Lippert:2005:FAG,
author = "Ross A. Lippert and Xiaoyue Zhao and Liliana Florea
and Clark Mobarry and Sorin Istrail",
title = "Finding Anchors for Genomic Sequence Comparison",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "762--776",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.762",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.762;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.762",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Menke:2005:WPN,
author = "Matthew Menke and Jonathan King and Bonnie Berger and
Lenore Cowen",
title = "Wrap-and-Pack: a New Paradigm for Beta Structural
Motif Recognition with Application to Recognizing Beta
Trefoils",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "777--795",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.777",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.777;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.777",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Nakhleh:2005:RRE,
author = "Luay Nakhleh and Tandy Warnow and C. Randal Linder and
Katherine {St.John}",
title = "Reconstructing Reticulate Evolution in Species ---
Theory and Practice",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "796--811",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.796",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.796;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.796",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Sankoff:2005:CBR,
author = "David Sankoff and Phil Trinh",
title = "Chromosomal Breakpoint Reuse in Genome Sequence
Rearrangement",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "812--821",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.812",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.812;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.812",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Segal:2005:DMI,
author = "Eran Segal and Roded Sharan",
title = "A Discriminative Model for Identifying Spatial {\em
cis\/}-Regulatory Modules",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "822--834",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.822",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.822;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.822",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Sharan:2005:IPC,
author = "Roded Sharan and Trey Ideker and Brian Kelley and Ron
Shamir and Richard M. Karp",
title = "Identification of Protein Complexes by Comparative
Analysis of Yeast and Bacterial Protein Interaction
Data",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "835--846",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.835",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.835;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.835",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Sun:2005:DMS,
author = "Yanni Sun and Jeremy Buhler",
title = "Designing Multiple Simultaneous Seeds for {DNA}
Similarity Search",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "847--861",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.847",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.847;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.847",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Tang:2005:UMP,
author = "Xinyu Tang and Bonnie Kirkpatrick and Shawna Thomas
and Guang Song and Nancy M. Amato",
title = "Using Motion Planning to Study {RNA} Folding
Kinetics",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "862--881",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.862",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.862;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.862",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Wu:2005:SMI,
author = "Zhijin Wu and Rafael A. Irizarry",
title = "Stochastic Models Inspired by Hybridization Theory for
Short Oligonucleotide Arrays",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "882--893",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.882",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.882;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.882",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Zhao:2005:FSD,
author = "Xiaoyue Zhao and Haiyan Huang and Terence P. Speed",
title = "Finding Short {DNA} Motifs Using Permuted {Markov}
Models",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "894--906",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.894",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.894;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.894",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Anonymous:2005:C,
author = "Anonymous",
title = "Correction",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "6",
pages = "907--907",
month = jul,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.907",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:47:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.907",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2005",
}
@Article{Battle:2005:PDO,
author = "Alexis Battle and Eran Segal and Daphne Koller",
title = "Probabilistic Discovery of Overlapping Cellular
Processes and Their Regulation",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "909--927",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.909",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.909;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.909",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Wexler:2005:FAT,
author = "Ydo Wexler and Zohar Yakhini and Yechezkel Kashi and
Dan Geiger",
title = "Finding Approximate Tandem Repeats in Genomic
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "928--942",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.928",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.928;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.928",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Lippert:2005:SEC,
author = "Ross A. Lippert and Clark M. Mobarry and Brian P.
Walenz",
title = "A Space-Efficient Construction of the
{Burrows--Wheeler} Transform for Genomic Data",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "943--951",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.943",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.943;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.943",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Xie:2005:BMM,
author = "Jun Xie and Nak-Kyeong Kim",
title = "{Bayesian} Models and {Markov} Chain {Monte Carlo}
Methods for Protein Motifs with the Secondary
Characteristics",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "952--970",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.952",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.952;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.952",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Liu:2005:FCB,
author = "Jian Liu and Ming Li",
title = "Finding Cancer Biomarkers from Mass Spectrometry Data
by Decision Lists",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "971--979",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.971",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.971;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.971",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Sharon:2005:CBV,
author = "Itai Sharon and Aaron Birkland and Kuan Chang and Ran
El-Yaniv and Golan Yona",
title = "Correcting {BLAST} $e$-Values for Low-Complexity
Segments",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "980--1003",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.980",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.980;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.980",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Tichy:2005:EPT,
author = "Robert F. Tichy and Stephan Wagner",
title = "Extremal Problems for Topological Indices in
Combinatorial Chemistry",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "1004--1013",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Kaufman:2005:CPA,
author = "Menachem Kaufman and David Bloch and Naomi Zurgil and
Yana Shafran and Mordechai Deutsch",
title = "A Cluster Pattern Algorithm for the Analysis of
Multiparametric Cell Assays",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "1014--1028",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1014",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1014;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1014",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Zhu:2005:HTS,
author = "Dongxiao Zhu and Alfred O. Hero and Zhaohui S. Qin and
Anand Swaroop",
title = "High Throughput Screening of Co-Expressed Gene Pairs
with Controlled False Discovery Rate {(FDR)} and
Minimum Acceptable Strength {(MAS)}",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "7",
pages = "1029--1045",
month = sep,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2005",
}
@Article{Zhao:2005:CAQ,
author = "Sheng Zhao and Russell D. Fernald",
title = "Comprehensive Algorithm for Quantitative Real-Time
Polymerase Chain Reaction",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "8",
pages = "1047--1064",
month = oct,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1047",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1047;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1047",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2005",
}
@Article{Morgante:2005:SMS,
author = "Michele Morgante and Alberto Policriti and Nicola
Vitacolonna and Andrea Zuccolo",
title = "Structured Motifs Search",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "8",
pages = "1065--1082",
month = oct,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1065;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1065",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2005",
}
@Article{Hoberman:2005:SAS,
author = "Rose Hoberman and David Sankoff and Dannie Durand",
title = "The Statistical Analysis of Spatially Clustered Genes
under the Maximum Gap Criterion",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "8",
pages = "1083--1102",
month = oct,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2005",
}
@Article{Yang:2005:GCU,
author = "Albert C.-C. Yang and Ary L. Goldberger and C.-K.
Peng",
title = "Genomic Classification Using an Information-Based
Similarity Index: Application to the {SARS}
Coronavirus",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "8",
pages = "1103--1116",
month = oct,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2005",
}
@Article{Rajasekaran:2005:EAP,
author = "S. Rajasekaran and S. Balla and C.-H. Huang",
title = "Exact Algorithms for Planted Motif Problems",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "8",
pages = "1117--1128",
month = oct,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2005",
}
@Article{DYachkov:2005:CPD,
author = "A. D'Yachkov and Frank Hwang and Antony Macula and
Pavel Vilenkin and Chih-Wen Weng",
title = "A Construction of Pooling Designs with Some Happy
Surprises",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "8",
pages = "1129--1136",
month = oct,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2005",
}
@Article{Preparata:2005:QPS,
author = "Franco P. Preparata and Louxin Zhang and Kwok Pui
Choi",
title = "Quick, Practical Selection of Effective Seeds for
Homology Search",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "9",
pages = "1137--1152",
month = nov,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2005",
}
@Article{Yin:2005:FCC,
author = "Changchuan Yin and Stephen S.-T. Yau",
title = "A {Fourier} Characteristic of Coding Sequences:
Origins and a Non-{Fourier} Approximation",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "9",
pages = "1153--1165",
month = nov,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2005",
}
@Article{Christensen:2005:PLA,
author = "Ole F. Christensen and Asger Hobolth and Jens L.
Jensen",
title = "Pseudo-Likelihood Analysis of Codon Substitution
Models with Neighbor-Dependent Rates",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "9",
pages = "1166--1182",
month = nov,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1166",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1166;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1166",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2005",
}
@Article{Rosenberg:2005:ASI,
author = "Noah A. Rosenberg",
title = "Algorithms for Selecting Informative Marker Panels for
Population Assignment",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "9",
pages = "1183--1201",
month = nov,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1183",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1183;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1183",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2005",
}
@Article{Yang:2005:EED,
author = "Chu-Wen Yang and Chin-Fu Hsiao and Chen-Kung Chou",
title = "Evaluation of Experimental Designs for Two-Color
{cDNA} Microarrays",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "9",
pages = "1202--1220",
month = nov,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1202",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1202;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1202",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2005",
}
@Article{Aung:2005:APS,
author = "Zeyar Aung and Kian-Lee Tan",
title = "Automatic {$3$D} Protein Structure Classification
without Structural Alignment",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "9",
pages = "1221--1241",
month = nov,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1221",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1221;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1221",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2005",
}
@Article{Kimmel:2005:BFH,
author = "Gad Kimmel and Ron Shamir",
title = "A Block-Free Hidden {Markov} Model for Genotypes and
Its Application to Disease Association",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1243--1260",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{Huang:2005:AAH,
author = "Yao-Ting Huang and Kun-Mao Chao and Ting Chen",
title = "An Approximation Algorithm for Haplotype Inference by
Maximum Parsimony",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1261--1274",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1261;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1261",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{Dunlavy:2005:HHO,
author = "Daniel M. Dunlavy and Dianne P. O'leary and Dmitri
Klimov and D. Thirumalai",
title = "{HOPE}: a Homotopy Optimization Method for Protein
Structure Prediction",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1275--1288",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1275;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1275",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{Landau:2005:GPA,
author = "Gad M. Landau and Laxmi Parida and Oren Weimann",
title = "Gene Proximity Analysis across Whole Genomes via {PQ}
Trees$^1$",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1289--1306",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1289",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1289;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1289",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{Liebermeister:2005:PPC,
author = "Wolfram Liebermeister",
title = "Predicting Physiological Concentrations of Metabolites
from Their Molecular Structure",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1307--1315",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1307",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1307;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1307",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{Tosatto:2005:VFF,
author = "Silvio C. E. Tosatto",
title = "The {Victor/FRST} Function for Model Quality
Estimation",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1316--1327",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1316",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1316;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1316",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{Gupta:2005:SAI,
author = "Arvind Gupta and J{\'a}n Ma{\v{n}}uch and Ladislav
Stacho",
title = "Structure-Approximating Inverse Protein Folding
Problem in the {$2$D} {HP} Model",
journal = j-J-COMPUT-BIOL,
volume = "12",
number = "10",
pages = "1328--1345",
month = dec,
year = "2005",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2005.12.1328",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2005.12.1328;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2005.12.1328",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 December 2005",
}
@Article{West:2006:VPS,
author = "Joseph West and John Healy and Michael Wigler and
William Casey and Bud Mishra",
title = "Validation of \bioname{S. Pombe} Sequence Assembly by
Microarray Hybridization",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "1--20",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Chiang:2006:GTC,
author = "David Chiang and Aravind K. Joshi and Ken A. Dill",
title = "A Grammatical Theory for the Conformational Changes of
Simple Helix Bundles",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "21--42",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.21",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.21;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.21",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Vesterstrom:2006:FSS,
author = "Jakob Vesterstr{\o}m and William R. Taylor",
title = "Flexible Secondary Structure Based Protein Structure
Comparison Applied to the Detection of Circular
Permutation",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "43--63",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.43",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.43;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.43",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Havilio:2006:SDB,
author = "Moshe Havilio",
title = "Signal Deconvolution Based Expression-Detection and
Background Adjustment for Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "63--80",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.63",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.63;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.63",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Gambin:2006:ACD,
author = "Anna Gambin and Jerzy Tiuryn and Jerzy Tyszkiewicz",
title = "Alignment with Context Dependent Scoring Function",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "81--101",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.81",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.81;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.81",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Bhasin:2006:RCH,
author = "Manoj Bhasin and Ellis L. Reinherz and Pedro A.
Reche",
title = "Recognition and Classification of Histones Using
Support Vector Machine",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "102--112",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Hohm:2006:MEM,
author = "Tim Hohm and Philipp Limbourg and Daniel Hoffmann",
title = "A Multiobjective Evolutionary Method for the Design of
Peptidic Mimotopes",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "113--125",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Yeh:2006:PMP,
author = "Joanne I. Yeh and Lisong Mao",
title = "Prediction of Membrane Proteins in
\bioname{Mycobacterium tuberculosis} Using a Support
Vector Machine Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "1",
pages = "126--129",
month = jan,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 February 2006",
}
@Article{Miyano:2006:PSR,
author = "Satoru Miyano",
title = "Preface: Special {RECOMB 2005} Issue",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "131--132",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.131",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.131",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Scott:2006:EAD,
author = "Jacob Scott and Trey Ideker and Richard M. Karp and
Roded Sharan",
title = "Efficient Algorithms for Detecting Signaling Pathways
in Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "133--144",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Jaimovich:2006:TIP,
author = "Ariel Jaimovich and Gal Elidan and Hanah Margalit and
Nir Friedman",
title = "Towards an Integrated Protein--Protein Interaction
Network: a Relational {Markov} Network Approach",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "145--164",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Gat-Viks:2006:PMI,
author = "Irit Gat-Viks and Amos Tanay and Daniela Raijman and
Ron Shamir",
title = "A Probabilistic Methodology for Integrating Knowledge
and Experiments on Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "165--181",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Koyuturk:2006:PAP,
author = "Mehmet Koyut{\"u}rk and Yohan Kim and Umut Topkara and
Shankar Subramaniam and Wojciech Szpankowski and Ananth
Grama",
title = "Pairwise Alignment of Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "182--199",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.182",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.182;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.182",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Frey:2006:GGM,
author = "Brendan J. Frey and Quaid D. Morris and Timothy R.
Hughes",
title = "{GenRate}: a Generative Model that Reveals Novel
Transcripts in Genome-Tiling Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "200--214",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.200",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.200;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.200",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Lipson:2006:ECI,
author = "Doron Lipson and Yonatan Aumann and Amir Ben-Dor and
Nathan Linial and Zohar Yakhini",
title = "Efficient Calculation of Interval Scores for {DNA}
Copy Number Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "215--228",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.215;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Wu:2006:RET,
author = "Kun-Pin Wu and Jia-Ming Chang and Jun-Bo Chen and
Chi-Fon Chang and Wen-Jin Wu and Tai-Huang Huang and
Ting-Yi Sung and Wen-Lian Hsu",
title = "{RIBRA} --- An Error-Tolerant Algorithm for the {NMR}
Backbone Assignment Problem",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "229--244",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.229",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.229;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.229",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Zilberstein:2006:HTA,
author = "Chaya Ben-Zaken Zilberstein and Michal Ziv-Ukelson and
Ron Y. Pinter and Zohar Yakhini",
title = "A High-Throughput Approach for Associating {MicroRNAs}
with Their Activity Conditions",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "245--266",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.245",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.245;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.245",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Alkan:2006:RRI,
author = "Can Alkan and Emre Karako{\c{c}} and Joseph H. Nadeau
and S. Cenk Sahinalp and Kaizhong Zhang",
title = "{RNA--RNA} Interaction Prediction and Antisense {RNA}
Target Search",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "267--282",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.267",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.267;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.267",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Bafna:2006:CFU,
author = "Vineet Bafna and Haixu Tang and Shaojie Zhang",
title = "Consensus Folding of Unaligned {RNA} Sequences
Revisited",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "283--295",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.283",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.283;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.283",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Rasmussen:2006:EGF,
author = "Kim R. Rasmussen and Jens Stoye and Eugene W. Myers",
title = "Efficient $q$-Gram Filters for Finding All $ \epsilon
$-Matches over a Given Length",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "296--308",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.296",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.296;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.296",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Sze:2006:PTS,
author = "Sing-Hoi Sze and Yue Lu and Qingwu Yang",
title = "A Polynomial Time Solvable Formulation of Multiple
Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "309--319",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.309",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.309;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.309",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Durand:2006:HMM,
author = "Dannie Durand and Bjarni V. Halld{\'o}rsson and
Benjamin Vernot",
title = "A Hybrid Micro--Macroevolutionary Approach to Gene
Tree Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "320--335",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.320",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.320;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.320",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Ulitsky:2006:ACS,
author = "Igor Ulitsky and David Burstein and Tamir Tuller and
Benny Chor",
title = "The Average Common Substring Approach to Phylogenomic
Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "336--350",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.336",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.336;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.336",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Przytycka:2006:GTI,
author = "Teresa Przytycka and George Davis and Nan Song and
Dannie Durand",
title = "Graph Theoretical Insights into Evolution of
Multidomain Proteins",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "351--363",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.351",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.351;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.351",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Bern:2006:NAP,
author = "Marshall Bern and David Goldberg",
title = "{{\em {De} Novo\/}} Analysis of Peptide Tandem Mass
Spectra by Spectral Graph Partitioning",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "364--378",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.364",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.364;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.364",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Gross:2006:UMA,
author = "Samuel S. Gross and Michael R. Brent",
title = "Using Multiple Alignments to Improve Gene Prediction",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "379--393",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.379",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.379;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.379",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Liu:2006:PFR,
author = "Yan Liu and Jaime Carbonell and Peter Weigele and
Vanathi Gopalakrishnan",
title = "Protein Fold Recognition Using Segmentation
Conditional Random Fields {(SCRFs)}",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "394--406",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.394",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.394;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.394",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Shatsky:2006:MCP,
author = "Maxim Shatsky and Alexandra Shulman-Peleg and Ruth
Nussinov and Haim J. Wolfson",
title = "The Multiple Common Point Set Problem and Its
Application to Molecule Binding Pattern Detection",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "407--428",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.407",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.407;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.407",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Chia:2006:PAS,
author = "Nicholas Chia and Ralf Bundschuh",
title = "A Practical Approach to Significance Assessment in
Alignment with Gaps",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "429--441",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.429",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.429;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.429",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Valouev:2006:AOM,
author = "Anton Valouev and Lei Li and Yu-Chi Liu and David C.
Schwartz and Yi Yang and Yu Zhang and Michael S.
Waterman",
title = "Alignment of Optical Maps",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "442--462",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.442",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.442;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.442",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Yeang:2006:MCF,
author = "Chen-Hsiang Yeang and Tommi Jaakkola",
title = "Modeling the Combinatorial Functions of Multiple
Transcription Factors",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "463--480",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.463",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.463;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.463",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Halperin:2006:HEH,
author = "Eran Halperin and Elad Hazan",
title = "{HAPLOFREQ} --- Estimating Haplotype Frequencies
Efficiently",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "481--500",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.481",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.481;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.481",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Bafna:2006:IAR,
author = "Vineet Bafna and Vikas Bansal",
title = "Inference about Recombination from Haplotype Data:
Lower Bounds and Recombination Hotspots",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "501--521",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.501",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.501;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.501",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Ding:2006:LTA,
author = "Zhihong Ding and Vladimir Filkov and Dan Gusfield",
title = "A Linear-Time Algorithm for the Perfect Phylogeny
Haplotyping {(PPH)} Problem",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "522--553",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.522",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.522;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.522",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Mazowita:2006:SRM,
author = "Matthew Mazowita and Lani Haque and David Sankoff",
title = "Stability of Rearrangement Measures in the Comparison
of Genome Sequences",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "554--566",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.554",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.554;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.554",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Bergeron:2006:ST,
author = "Anne Bergeron and Julia Mixtacki and Jens Stoye",
title = "On Sorting by Translocations",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "2",
pages = "567--578",
month = mar,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.567",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.567;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.567",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2006",
}
@Article{Keles:2006:MTM,
author = "S{\"u}nd{\"u}z Kele{\c{s}} and Mark J. {Van Der Laan}
and Sandrine Dudoit and Simon E. Cawley",
title = "Multiple Testing Methods For {ChIP--Chip} High Density
Oligonucleotide Array Data",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "579--613",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.579",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.579;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.579",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Potra:2006:PIA,
author = "Florian A. Potra and Xing Liu and Fran{\c{c}}oise
Seillier-Moiseiwitsch and Anindya Roy and Yaming Hang
and Mark R. Marten and Babu Raman and Carol Whisnant",
title = "Protein Image Alignment via Piecewise Affine
Transformations",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "614--630",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.614",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.614;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.614",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Pollastri:2006:MDR,
author = "Gianluca Pollastri and Alessandro Vullo and Paolo
Frasconi and Pierre Baldi",
title = "Modular {DAG--RNN} Architectures for Assembling Coarse
Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "631--650",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.631",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.631;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.631",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Nicolas:2006:RJM,
author = "Pierre Nicolas and Anne-Sophie Tocquet and Vincent
Miele and Florence Muri",
title = "A Reversible Jump {Markov} Chain {Monte Carlo}
Algorithm for Bacterial Promoter Motifs Discovery",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "651--667",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.651",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.651;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.651",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Konagurthu:2006:OSP,
author = "Arun S. Konagurthu and Peter J. Stuckey",
title = "Optimal Sum-of-Pairs Multiple Sequence Alignment Using
Incremental {Carrillo} and {Lipman} Bounds",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "668--685",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.668",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.668;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.668",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Carlson:2006:BBS,
author = "Jonathan M. Carlson and Arijit Chakravarty and Robert
H. Gross",
title = "{BEAM}: a Beam Search Algorithm for the Identification
of {{\em Cis\/}}-Regulatory Elements in Groups of
Genes",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "686--701",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.686",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.686;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.686",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Jansson:2006:LGS,
author = "Jesper Jansson and Ngo Trung Hieu and Wing-Kin Sung",
title = "Local Gapped Subforest Alignment and Its Application
in Finding {RNA} Structural Motifs",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "702--718",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.702",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.702;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.702",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Ferre:2006:FMP,
author = "S{\'e}bastien Ferr{\'e} and Ross D. King",
title = "Finding Motifs in Protein Secondary Structure for Use
in Function Prediction",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "719--731",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.719",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.719;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.719",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Mandoiu:2006:EAA,
author = "Ion I. M{\u{a}}ndoiu and Drago{\c{s}} Trinc{\u{a}}",
title = "Exact and Approximation Algorithms for {DNA} Tag Set
Design",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "732--744",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.732",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.732;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.732",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Reddy:2006:SBB,
author = "Chandan K. Reddy and Hsiao-Dong Chiang",
title = "A Stability Boundary Based Method for Finding Saddle
Points on Potential Energy Surfaces",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "745--766",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.745",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.745;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.745",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Ayers:2006:RAH,
author = "Kristin L. Ayers and Chiara Sabatti and Kenneth
Lange",
title = "Reconstructing Ancestral Haplotypes with a Dictionary
Model",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "767--785",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.767",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.767;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.767",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Huang:2006:LPW,
author = "Shuguang Huang and Yongming Qu",
title = "The Loss in Power When the Test of Differential
Expression Is Performed under a Wrong Scale",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "786--797",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.786",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.786;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.786",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Raghavan:2006:MGF,
author = "N. Raghavan and D. Amaratunga and J. Cabrera and A.
Nie and J. Qin and M. McMillian",
title = "On Methods for Gene Function Scoring as a Means of
Facilitating the Interpretation of Microarray Results",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "798--809",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.798",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.798;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.798",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Khanin:2006:HSF,
author = "Raya Khanin and Ernst Wit",
title = "How Scale-Free Are Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "810--818",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.810",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.810;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.810",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Chor:2006:MLM,
author = "Benny Chor and Amit Khetan and Sagi Snir",
title = "Maximum Likelihood Molecular Clock Comb: Analytic
Solutions",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "819--837",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.819",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.819;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.819",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Golightly:2006:BSI,
author = "Andrew Golightly and Darren J. Wilkinson",
title = "{Bayesian} Sequential Inference for Stochastic Kinetic
Biochemical Network Models",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "3",
pages = "838--851",
month = apr,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.838",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.838;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.838",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2006",
}
@Article{Hjelm:2006:NPN,
author = "Marcus Hjelm and Mattias H{\"o}glund and Jens
Lagergren",
title = "New Probabilistic Network Models and Algorithms for
Oncogenesis",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "853--865",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.853",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.853;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.853",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{DYachkov:2006:NGI,
author = "Arkadii G. D'Yachkov and Anthony J. Macula and Wendy
K. Pogozelski and Thomas E. Renz and Vyacheslav V.
Rykov and David C. Torney",
title = "New $t$-Gap Insertion-Deletion-Like Metrics for {DNA}
Hybridization Thermodynamic Modeling",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "866--881",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.866",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.866;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.866",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Metzler:2006:RVG,
author = "Dirk Metzler",
title = "Robust {$E$}-Values for Gapped Local Alignments",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "882--896",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.882",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.882;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.882",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Vijayasatya:2006:OAP,
author = "Ravi Vijayasatya and Amar Mukherjee",
title = "An Optimal Algorithm for Perfect Phylogeny
Haplotyping",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "897--928",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.897",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.897;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.897",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Gunewardena:2006:EPT,
author = "Sumedha Gunewardena and Peter Jeavons and Zhaolei
Zhang",
title = "Enhancing the Prediction of Transcription Factor
Binding Sites by Incorporating Structural Properties
and Nucleotide Covariations",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "929--945",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.929",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.929;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.929",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Turutina:2006:IAA,
author = "Vera P. Turutina and Andrew A. Laskin and Nikolay A.
Kudryashov and Konstantin G. Skryabin and Eugene V.
Korotkov",
title = "Identification of Amino Acid Latent Periodicity within
94 Protein Families",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "946--964",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.946",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.946;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.946",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Cameron:2006:DFA,
author = "Michael Cameron and Hugh E. Williams and Adam
Cannane",
title = "A Deterministic Finite Automaton for Faster Protein
Hit Detection in {BLAST}",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "965--978",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.965",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.965;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.965",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Colannino:2006:LTA,
author = "Justin Colannino and Mirela Damian and Ferran Hurtado
and John Iacono and Henk Meijer and Suneeta Ramaswami
and Godfried Toussaint",
title = "An {$ O(n \log n) $}-Time Algorithm for the
Restriction Scaffold Assignment Problem",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "979--989",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.979",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.979;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.979",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Du:2006:NCT,
author = "Ding-Zhu Du and F. K. Hwang and Weili Wu and Taieb
Znati",
title = "New Construction for Transversal Design",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "990--995",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.990",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.990;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.990",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Chudin:2006:MTV,
author = "E. Chudin and S. Kruglyak and S. C. Baker and S. Oeser
and D. Barker and T. K. McDaniel",
title = "A Model of Technical Variation of Microarray Signals",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "4",
pages = "996--1003",
month = may,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.996",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.996;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.996",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2006",
}
@Article{Sankoff:2006:DGD,
author = "David Sankoff and Lani Haque",
title = "The Distribution of Genomic Distance between Random
Genomes",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1005--1012",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Kent:2006:CSE,
author = "Carmel Kent and Gad M. Landau and Michal Ziv-Ukelson",
title = "On the Complexity of Sparse Exon Assembly",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1013--1027",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Morgulis:2006:FSD,
author = "Aleksandr Morgulis and E. Michael Gertz and Alejandro
A. Sch{\"a}ffer and Richa Agarwala",
title = "A Fast and Symmetric {DUST} Implementation to Mask
Low-Complexity {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1028--1040",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1028",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1028;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1028",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Maximova:2006:NAN,
author = "Tatiana Maximova and Chen Keasar",
title = "A Novel Algorithm for Non-Bonded-List Updating in
Molecular Simulations",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1041--1048",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1041;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1041",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Goutsias:2006:STR,
author = "John Goutsias and Seungchan Kim",
title = "Stochastic Transcriptional Regulatory Systems with
Time Delays: a Mean-Field Approximation",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1049--1076",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1049",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1049;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1049",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Chiang:2006:GRM,
author = "David Chiang and Aravind K. Joshi and David B.
Searls",
title = "Grammatical Representations of Macromolecular
Structure",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1077--1100",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1077",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1077;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1077",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Allman:2006:ITT,
author = "Elizabeth S. Allman and John A. Rhodes",
title = "The Identifiability of Tree Topology for Phylogenetic
Models, Including Covarion and Mixture Models",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1101--1113",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Beattie:2006:BSP,
author = "Bradley J. Beattie and Peter N. Robinson",
title = "Binary State Pattern Clustering: a Digital Paradigm
for Class and Biomarker Discovery in Gene Microarray
Studies of Cancer",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "5",
pages = "1114--1130",
month = jun,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2006",
}
@Article{Presson:2006:MMD,
author = "Angela P. Presson and Eric Sobel and Kenneth Lange and
Jeanette C. Papp",
title = "Merging Microsatellite Data",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1131--1147",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1131",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1131;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1131",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Wu:2006:CED,
author = "Jing Wu and David Haussler",
title = "Coding Exon Detection Using Comparative Sequences",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1148--1164",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Horesh:2006:DAC,
author = "Yair Horesh and Ramit Mehr and Ron Unger",
title = "Designing an {$ A* $} Algorithm for Calculating Edit
Distance between Rooted-Unordered Trees",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1165--1176",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Wendl:2006:GCT,
author = "Michael C. Wendl",
title = "A General Coverage Theory for Shotgun {DNA}
Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1177--1196",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1177",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1177;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1177",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Rodland:2006:PRS,
author = "Einar Andreas R{\o}dland",
title = "Pseudoknots in {RNA} Secondary Structures:
Representation, Enumeration, and Prevalence",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1197--1213",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Christodoulakis:2006:CRR,
author = "M. Christodoulakis and C. Iliopoulos and L. Mouchard
and K. Perdikuri and A. Tsakalidis and K. Tsichlas",
title = "Computation of Repetitions and Regularities of
Biologically Weighted Sequences",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1214--1231",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1214",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1214;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1214",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Sitharam:2006:MVS,
author = "Meera Sitharam and Mavis Agbandje-Mckenna",
title = "Modeling Virus Self-Assembly Pathways: Avoiding
Dynamics Using Geometric Constraint Decomposition",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "6",
pages = "1232--1265",
month = jul,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1232;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2006",
}
@Article{Wang:2006:PTA,
author = "Lincong Wang and Ramgopal R. Mettu and Bruce Randall
Donald",
title = "A Polynomial-Time Algorithm for {{\em {De} Novo\/}}
Protein Backbone Structure Determination from Nuclear
Magnetic Resonance Data",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1267--1288",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1267",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1267;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1267",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Haimovich:2006:WAD,
author = "Adrian D. Haimovich and Bruce Byrne and Ramakrishna
Ramaswamy and William J. Welsh",
title = "Wavelet Analysis of {DNA} Walks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1289--1298",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1289",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1289;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1289",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Koyuturk:2006:DCI,
author = "Mehmet Koyut{\"u}rk and Yohan Kim and Shankar
Subramaniam and Wojciech Szpankowski and Ananth Grama",
title = "Detecting Conserved Interaction Patterns in Biological
Networks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1299--1322",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1299",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1299;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1299",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Elias:2006:SIM,
author = "Isaac Elias",
title = "Settling the Intractability of Multiple Alignment",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1323--1339",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1323",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1323;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1323",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Bergeron:2006:SSP,
author = "Anne Bergeron and Jens Stoye",
title = "On the Similarity of Sets of Permutations and Its
Applications to Genome Comparison",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1340--1354",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1340",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1340;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1340",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Xu:2006:OMS,
author = "Jinbo Xu and Daniel Brown and Ming Li and Bin Ma",
title = "Optimizing Multiple Spaced Seeds for Homology Search",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1355--1368",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1355",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1355;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1355",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Keith:2006:SEG,
author = "Jonathan M. Keith",
title = "Segmenting Eukaryotic Genomes with the Generalized
{Gibbs} Sampler",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1369--1383",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1369",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1369;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1369",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Potra:2006:AFT,
author = "Florian A. Potra and Xing Liu",
title = "Aligning Families of Two-Dimensional Gels by a
Combined Multiresolution Forward-Inverse Transformation
Approach",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "7",
pages = "1384--1395",
month = sep,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1384",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1384;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1384",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2006",
}
@Article{Swidan:2006:RAP,
author = "Firas Swidan and Michal Ziv-Ukelson and Ron Y.
Pinter",
title = "On the Repeat-Annotated Phylogenetic Tree
Reconstruction Problem",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1397--1418",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1397",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1397;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1397",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Bonet:2006:ASD,
author = "Maria Luisa Bonet and Katherine {St.John} and Ruchi
Mahindru and Nina Amenta",
title = "Approximating Subtree Distances Between Phylogenies",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1419--1434",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1419",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1419;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1419",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Just:2006:RED,
author = "Winfried Just",
title = "Reverse Engineering Discrete Dynamical Systems from
Data Sets with Random Input Vectors",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1435--1456",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1435",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1435;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1435",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Richardson:2006:FSE,
author = "Joel E. Richardson",
title = "{\tt fjoin}: Simple and Efficient Computation of
Feature Overlaps",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1457--1464",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1457",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1457;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1457",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Didier:2006:LDS,
author = "Gilles Didier and Ivan Laprevotte and Maude Pupin and
Alain H{\'e}naut",
title = "Local Decoding of Sequences and Alignment-Free
Comparison",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1465--1476",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1465",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1465;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1465",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Menconi:2006:CBA,
author = "Giulia Menconi and Roberto Marangoni",
title = "A Compression-Based Approach for Coding Sequences
Identification. {I}. {Application} to Prokaryotic
Genomes",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1477--1488",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1477",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1477;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1477",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Mooney:2006:PSM,
author = "Catherine Mooney and Alessandro Vullo and Gianluca
Pollastri",
title = "Protein Structural Motif Prediction in
Multidimensional $ \phi $--$ \psi $ Space Leads to
Improved Secondary Structure Prediction",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1489--1502",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1489",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1489;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1489",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Emmert-Streib:2006:ACK,
author = "Frank Emmert-Streib",
title = "Algorithmic Computation of Knot Polynomials of
Secondary Structure Elements of Proteins",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "8",
pages = "1503--1512",
month = oct,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1503",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1503;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1503",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2006",
}
@Article{Moerkerke:2006:SSD,
author = "B. Moerkerke and E. Goetghebeur",
title = "Selecting ``Significant'' Differentially Expressed
Genes from the Combined Perspective of the Null and the
Alternative",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1513--1531",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1513",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1513;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1513",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Chen:2006:DEA,
author = "Peter C. Y. Chen",
title = "A Discrete-Event Approach to Transcription Control
with Dynamic Event-Controllability",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1532--1545",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1532",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1532;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1532",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Ruths:2006:HGS,
author = "Derek A. Ruths and Luay Nakhleh and M. Sriram Iyengar
and Shrikanth A. G. Reddy and Prahlad T. Ram",
title = "Hypothesis Generation in Signaling Networks",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1546--1557",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1546",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1546;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1546",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Jaklic:2006:CCB,
author = "Ga{\v{s}}per Jakli{\v{c}} and Toma{\v{z}} Pisanski and
Milan Randi{\'c}",
title = "Characterization of Complex Biological Systems by
Matrix Invariants",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1558--1564",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1558",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1558;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1558",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Chen:2006:FRT,
author = "Yu Chen and Gordon M. Crippen",
title = "Fold Recognition via a Tree",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1565--1573",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1565",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1565;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1565",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Bruno:2006:TPD,
author = "William J. Bruno and John E. Pearson",
title = "Transformations that Preserve Detailed Balance in
{Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1574--1578",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1574",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1574;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1574",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Han:2006:PDRa,
author = "Pengfei Han and Xiuzhen Zhang and Raymond S. Norton
and Zhi-Ping Feng",
title = "Predicting Disordered Regions in Proteins Based on
Decision Trees of Reduced Amino Acid Composition",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1579--1590",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1579",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1579;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1579",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Mertens:2006:MSP,
author = "Bart J. A. Mertens and M. E. {De Noo} and R. A. E. M.
Tollenaar and A. M. Deelder",
title = "Mass Spectrometry Proteomic Diagnosis: Enacting the
Double Cross-Validatory Paradigm",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1591--1605",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1591",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1591;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1591",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Liu:2006:GWT,
author = "Zhenqiu Liu and Shili Lin and Ming Tan",
title = "Genome-Wide Tagging {SNPs} with Entropy-Based {Monte
Carlo} Method",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1606--1614",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1606",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1606;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1606",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Kim:2006:PMAa,
author = "Nak-Kyeong Kim and Jun Xie",
title = "Protein Multiple Alignment Incorporating Primary and
Secondary Structure Information",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1615--1629",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1615",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1615;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1615",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Ribeiro:2006:GMS,
author = "Andre Ribeiro and Rui Zhu and Stuart A. Kauffman",
title = "A General Modeling Strategy for Gene Regulatory
Networks with Stochastic Dynamics",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1630--1639",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1630",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1630;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1630",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Clote:2006:CSS,
author = "P. Clote",
title = "Combinatorics of Saturated Secondary Structures of
{RNA}",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "9",
pages = "1640--1657",
month = nov,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1640",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1640;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1640",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2006",
}
@Article{Alon:2006:MNG,
author = "Noga Alon and Vera Asodi and Charles Cantor and Simon
Kasif and John Rachlin",
title = "Multi-Node Graphs: a Framework for Multiplexed
Biological Assays",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1659--1672",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1659",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1659;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1659",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Wang:2006:EIA,
author = "Lu-yong Wang and Dorin Comaniciu and Daniel Fasulo",
title = "Exploiting Interactions among Polymorphisms
Contributing to Complex Disease Traits with Boosted
Generative Modeling",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1673--1684",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1673",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1673;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1673",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Parida:2006:UPS,
author = "Laxmi Parida",
title = "Using {PQ} Structures for Genomic Rearrangement
Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1685--1700",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1685",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1685;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1685",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Lartillot:2006:CGS,
author = "Nicolas Lartillot",
title = "Conjugate {Gibbs} Sampling for {Bayesian} Phylogenetic
Models",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1701--1722",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1701",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1701;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1701",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Han:2006:PDRb,
author = "Pengfei Han and Xiuzhen Zhang and Raymond S. Norton
and Zhi-Ping Feng",
title = "Predicting Disordered Regions in Proteins Based on
Decision Trees of Reduced Amino Acid Composition",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1723--1734",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1723",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1723;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1723",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Kim:2006:PMAb,
author = "Nak-Kyeong Kim and Jun Xie",
title = "Protein Multiple Alignment Incorporating Primary and
Secondary Structure Information",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1735--1748",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1735",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1735;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1735",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Roy:2006:HSM,
author = "Sushmita Roy and Terran Lane and Chris Allen and
Anthony D. Aragon and Margaret Werner-Washburne",
title = "A Hidden-State {Markov} Model for Cell Population
Deconvolution",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1749--1774",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1749",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1749;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1749",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Hung:2006:CUC,
author = "Chun-Min Hung and Yueh-Min Huang and Ming-Shi Chang",
title = "{CSAM}: Using Clustering-Hashing-Signal Anchoring
Method to Explore Human Novel Genes",
journal = j-J-COMPUT-BIOL,
volume = "13",
number = "10",
pages = "1775--1789",
month = dec,
year = "2006",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.13.1775",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.13.1775;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.13.1775",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2007",
}
@Article{Gronau:2007:NJA,
author = "Ilan Gronau and Shlomo Moran",
title = "Neighbor Joining Algorithms for Inferring Phylogenies
via {LCA} Distances",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "1--15",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Rastegari:2007:PNA,
author = "Baharak Rastegari and Anne Condon",
title = "Parsing Nucleic Acid Pseudoknotted Secondary
Structure: Algorithm and Applications",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "16--32",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Siebert:2007:DPA,
author = "Sven Siebert and Rolf Backofen",
title = "A Dynamic Programming Approach for Finding Common
Patterns in {RNAs}",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "33--44",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0089",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0089;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0089",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Parida:2007:GPP,
author = "Laxmi Parida",
title = "Gapped Permutation Pattern Discovery for Gene Order
Comparisons",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "45--55",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Yang:2007:PMG,
author = "Qingwu Yang and Sing-Hoi Sze",
title = "Path Matching and Graph Matching in Biological
Networks",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "56--67",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0076",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0076;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0076",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Lees:2007:GMA,
author = "Karen Lees and Stephen Roberts and Pari Skamnioti and
Sarah Gurr",
title = "Gene Microarray Analysis Using Angular Distribution
Decomposition",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "68--83",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Bishop:2007:GTA,
author = "Morgan Bishop and Anthony J. Macula and Kayla Nimmo
and Lauren Wood and Wendy K. Pogozelski and Thomas E.
Renz",
title = "Group Testing to Annihilate Pairs Applied to {DNA}
Cross-Hybridization Elimination Using {SYBR Green I}",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "84--96",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Saha:2007:VEP,
author = "Nilanjan Saha and Layne T. Watson and Karen Kafadar
and Naren Ramakrishnan and Alexey Onufriev and
Shrinivasrao Mane and Cecilia Vasquez-Robinet",
title = "Validation and Estimation of Parameters for a General
Probabilistic Model of the {PCR} Process",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "1",
pages = "97--112",
month = jan,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0123",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0123;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0123",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2007",
}
@Article{Zhou:2007:DSS,
author = "Leming Zhou and Liliana Florea",
title = "Designing Sensitive and Specific Spaced Seeds for
Cross-Species {mRNA-to-Genome} Alignment",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "113--130",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0130",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0130;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0130",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Agarwal:2007:FMS,
author = "Pankaj K. Agarwal and Nabil H. Mustafa and Yusu Wang",
title = "Fast Molecular Shape Matching Using Contact Maps",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "131--143",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Levy:2007:ICA,
author = "Dan Levy and Christopher Reeder and Bradford Loucas
and Lynn Hlatky and Allen Chen and Michael Cornforth
and Rainer Sachs",
title = "Interpreting Chromosome Aberration Spectra",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "144--155",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0127",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0127;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0127",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Stefankovic:2007:PMM,
author = "Daniel {\v{S}}tefankovi{\v{c}} and Eric Vigoda",
title = "Phylogeny of Mixture Models: Robustness of Maximum
Likelihood and Non-Identifiable Distributions",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "156--189",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Waldispuhl:2007:CPF,
author = "J. Waldisp{\"u}hl and P. Clote",
title = "Computing the Partition Function and Sampling for
Saturated Secondary Structures of {RNA}, with Respect
to the {Turner} Energy Model",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "190--215",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0012",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0012;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0012",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Elias:2007:RAG,
author = "Isaac Elias and Tamir Tuller",
title = "Reconstruction of Ancestral Genomic Sequences Using
Likelihood",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "216--237",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Kong:2007:GCF,
author = "Yong Kong",
title = "Generalized Correlation Functions and Their
Applications in Selection of Optimal Multiple Spaced
Seeds for Homology Search",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "2",
pages = "238--254",
month = mar,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2007",
}
@Article{Li:2007:QMS,
author = "Haifeng Li and Anton Valouev and David C. Schwartz and
Michael S. Waterman and Lei M. Li",
title = "A Quantile Method for Sizing Optical Maps",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "255--266",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0006",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0006;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0006",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Xing:2007:BHI,
author = "Eric P. Xing and Michael I. Jordan and Roded Sharan",
title = "{Bayesian} Haplotype Inference via the {Dirichlet}
Process",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "267--284",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Bock:2007:DSR,
author = "Mary Ellen Bock and Claudio Garutti and Concettina
Guerra",
title = "Discovery of Similar Regions on Protein Surfaces",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "285--299",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Parida:2007:DTM,
author = "Laxmi Parida",
title = "Discovering Topological Motifs Using a Compact
Notation",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "300--323",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0142",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0142;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0142",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Kaminski:2007:PGM,
author = "Naftali Kaminski and Ziv Bar-Joseph",
title = "A Patient-Gene Model for Temporal Expression Profiles
in Clinical Studies",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "324--338",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Rempala:2007:VMM,
author = "Grzegorz A. Rempala and Kenneth S. Ramos and Ted
Kalbfleisch and Ivo Teneng",
title = "Validation of a Mathematical Model of Gene
Transcription in Aggregated Cellular Systems:
Application to {L1} Retrotransposition",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "339--349",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Lubomirski:2007:CAA,
author = "Mariusz Lubomirski and Michael R. D'Andrea and Stanley
M. Belkowski and Javier Cabrera and James M. Dixon and
Dhammika Amaratunga",
title = "A Consolidated Approach to Analyzing Data from
High-Throughput Protein Microarrays with an Application
to Immune Response Profiling in Humans",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "350--359",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Rosenberg:2007:CCH,
author = "Noah A. Rosenberg",
title = "Counting Coalescent Histories",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "3",
pages = "360--377",
month = apr,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0109",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0109;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0109",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2007",
}
@Article{Angibaud:2007:PBF,
author = "S{\'e}bastien Angibaud and Guillaume Fertin and Irena
Rusu and St{\'e}phane Vialette",
title = "A Pseudo-{Boolean} Framework for Computing
Rearrangement Distances between Genomes with
Duplicates",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "379--393",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Blin:2007:GML,
author = "Guillaume Blin and Eric Blais and Danny Hermelin and
Pierre Guillon and Mathieu Blanchette and Nadia
El-Mabrouk",
title = "Gene Maps Linearization Using Genomic Rearrangement
Distances",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "394--407",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A002;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Ozery-Flato:2007:SRT,
author = "Michal Ozery-Flato and Ron Shamir",
title = "Sorting by Reciprocal Translocations via Reversals
Theory",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "408--422",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Xu:2007:PCB,
author = "Wei Xu and Chunfang Zheng and David Sankoff",
title = "Paths and Cycles in Breakpoint Graph of Random
Multichromosomal Genomes",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "423--435",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Adam:2007:CIS,
author = "Zaky Adam and Monique Turmel and Claude Lemieux and
David Sankoff",
title = "Common Intervals and Symmetric Difference in a
Model-Free Phylogenomics, with an Application to
Streptophyte Evolution",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "436--445",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Diallo:2007:EHA,
author = "Abdoulaye Banire Diallo and Vladimir Makarenkov and
Mathieu Blanchette",
title = "Exact and Heuristic Algorithms for the Indel Maximum
Likelihood Problem",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "446--461",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A006",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A006;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A006",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Lajoie:2007:DIH,
author = "Mathieu Lajoie and Denis Bertrand and Nadia El-Mabrouk
and Olivier Gascuel",
title = "Duplication and Inversion History of a Tandemly
Repeated Genes Family",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "462--478",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Wojtowicz:2007:EGF,
author = "Damian W{\'o}jtowicz and Jerzy Tiuryn",
title = "Evolution of Gene Families Based on Gene Duplication,
Loss, Accumulated Change, and Innovation",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "479--495",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Song:2007:DAC,
author = "N. Song and R. D. Sedgewick and D. Durand",
title = "Domain Architecture Comparison for Multidomain
Homology Identification",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "496--516",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A009",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A009;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A009",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Than:2007:CFH,
author = "Cuong Than and Derek Ruths and Hideki Innan and Luay
Nakhleh",
title = "Confounding Factors in {HGT} Detection: Statistical
Error, Coalescent Effects, and Multiple Solutions",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "4",
pages = "517--535",
month = may,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.A010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.A010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.A010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2007",
}
@Article{Apostolico:2007:Pa,
author = "Alberto Apostolico",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "537--538",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.00P1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.00P1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Przytycka:2007:SCC,
author = "Teresa Przytycka",
title = "Stability of Characters and Construction of
Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "539--549",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Huang:2007:BIM,
author = "Jim C. Huang and Quaid D. Morris and Brendan J. Frey",
title = "{Bayesian} Inference of {MicroRNA} Targets from
Sequence and Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "550--563",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R002;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Xu:2007:PAP,
author = "Jinbo Xu and Feng Jiao and Bonnie Berger",
title = "A Parameterized Algorithm for Protein Structure
Alignment",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "564--577",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Chiang:2007:USR,
author = "Tsung-Han Chiang and Mehmet Serkan Apaydin and Douglas
L. Brutlag and David Hsu and Jean-Claude Latombe",
title = "Using Stochastic Roadmap Simulation to Predict
Experimental Quantities in Protein Folding Kinetics:
Folding Rates and Phi-Values",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "578--593",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Cameron:2007:CSR,
author = "Michael Cameron and Yaniv Bernstein and Hugh E.
Williams",
title = "Clustered Sequence Representation for Fast Homology
Search",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "594--614",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Bader:2007:SWR,
author = "Martin Bader and Enno Ohlebusch",
title = "Sorting by Weighted Reversals, Transpositions, and
Inverted Transpositions",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "615--636",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R006",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R006;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R006",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Xie:2007:RBE,
author = "Wei Xie and Nikolaos V. Sahinidis",
title = "A Reduction-Based Exact Algorithm for the Contact Map
Overlap Problem",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "637--654",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Messer:2007:ELR,
author = "Philipp W. Messer and Ralf Bundschuh and Martin
Vingron and Peter F. Arndt",
title = "Effects of Long-Range Correlations in {DNA} on
Sequence Alignment Score Statistics",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "655--668",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Scheid:2007:CUC,
author = "Stefanie Scheid and Rainer Spang",
title = "Compensating for Unknown Confounders in Microarray
Data Analysis Using Filtered Permutations",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "669--681",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R009",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R009;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R009",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Andersson:2007:MYS,
author = "Samuel A. Andersson and Jens Lagergren",
title = "{Motif Yggdrasil}: Sampling Sequence Motifs from a
Tree Mixture Model",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "5",
pages = "682--697",
month = jun,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2007",
}
@Article{Apostolico:2007:Pb,
author = "Alberto Apostolico",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "699--700",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.00P2",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.00P2",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Angelov:2007:EEP,
author = "Stanislav Angelov and Boulos Harb and Sampath Kannan
and Sanjeev Khanna and Junhyong Kim",
title = "Efficient Enumeration of Phylogenetically Informative
Substrings",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "701--723",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R011",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R011;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R011",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Pattengale:2007:ECR,
author = "Nicholas D. Pattengale and Eric J. Gottlieb and
Bernard M. E. Moret",
title = "Efficiently Computing the {Robinson--Foulds} Metric",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "724--735",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R012",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R012;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R012",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Heckerman:2007:LIA,
author = "David Heckerman and Carl Kadie and Jennifer
Listgarten",
title = "Leveraging Information Across {HLA} Alleles/Supertypes
Improves Epitope Prediction",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "736--746",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Koyuturk:2007:ASC,
author = "Mehmet Koyut{\"u}rk and Wojciech Szpankowski and
Ananth Grama",
title = "Assessing Significance of Connectivity and
Conservation in Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "747--764",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R014",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R014;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R014",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Chennubhotla:2007:MMH,
author = "Chakra Chennubhotla and Ivet Bahar",
title = "{Markov} Methods for Hierarchical Coarse-Graining of
Large Protein Dynamics",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "765--776",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R015",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R015;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R015",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Ye:2007:HMM,
author = "Xiaoduan Ye and Alan M. Friedman and Chris
Bailey-Kellogg",
title = "Hypergraph Model of Multi-Residue Interactions in
Proteins: Sequentially-Constrained Partitioning
Algorithms for Optimization of Site-Directed Protein
Recombination",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "777--790",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R016",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R016;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R016",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Chen:2007:MPP,
author = "Brian Y. Chen and Viacheslav Y. Fofanov and Drew H.
Bryant and Bradley D. Dodson and David M. Kristensen
and Andreas M. Lisewski and Marek Kimmel and Olivier
Lichtarge and Lydia E. Kavraki",
title = "The {MASH} Pipeline for Protein Function Prediction
and an Algorithm for the Geometric Refinement of {$3$D}
Motifs",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "791--816",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R017",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R017;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R017",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Chor:2007:BNC,
author = "Benny Chor and Tamir Tuller",
title = "Biological Networks: Comparison, Conservation, and
Evolution via Relative Description Length",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "817--838",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R018",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R018;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R018",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Thomas:2007:SPM,
author = "Shawna Thomas and Xinyu Tang and Lydia Tapia and Nancy
M. Amato",
title = "Simulating Protein Motions with Rigidity Analysis",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "839--855",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R019",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R019;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R019",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Wexler:2007:SAM,
author = "Ydo Wexler and Chaya Zilberstein and Michal
Ziv-Ukelson",
title = "A Study of Accessible Motifs and {RNA} Folding
Complexity",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "6",
pages = "856--872",
month = jul,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.R020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.R020;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.R020",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2007",
}
@Article{Domanic:2007:NAD,
author = "Nevzat Onur Domani{\c{c}} and Franco P. Preparata",
title = "A Novel Approach to the Detection of Genomic
Approximate Tandem Repeats in the {Levenshtein}
Metric",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "873--891",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0018",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0018;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0018",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Narayanan:2007:CPI,
author = "Manikandan Narayanan and Richard M. Karp",
title = "Comparing Protein Interaction Networks via a Graph
Match-and-Split Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "892--907",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Veksler-Lublinsky:2007:SBF,
author = "Isana Veksler-Lublinsky and Michal Ziv-Ukelson and
Danny Barash and Klara Kedem",
title = "A Structure-Based Flexible Search Method for Motifs in
{RNA}",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "908--926",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0061",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0061;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0061",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Albert:2007:NMS,
author = "R{\'e}ka Albert and Bhaskar DasGupta and Riccardo
Dondi and Sema Kachalo and Eduardo Sontag and Alexander
Zelikovsky and Kelly Westbrooks",
title = "A Novel Method for Signal Transduction Network
Inference from Indirect Experimental Evidence",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "927--949",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0015",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0015;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0015",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Zhang:2007:NCC,
author = "Liqing Zhang and Layne T. Watson",
title = "Note on the Computation of Critical Effective
Population Sizes",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "950--960",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Emmert-Streib:2007:CFS,
author = "Frank Emmert-Streib",
title = "The Chronic Fatigue Syndrome: a Comparative Pathway
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "961--972",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0041;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0041",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Andrecut:2007:PAG,
author = "M. Andrecut and S. A. Kauffman",
title = "A Physical Analogy of the Genetic Toggle Switch",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "973--983",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0038",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0038;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0038",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Zeiser:2007:MHO,
author = "Stefan Zeiser and Johannes M{\"u}ller and Volkmar
Liebscher",
title = "Modeling the {Hes1} Oscillator",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "984--1000",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Christodoulakis:2007:EAC,
author = "Manolis Christodoulakis and G. Brian Golding and
Costas S. Iliopoulos and Yoan Jos{\'e} Pinz{\'o}n
Ardila and William F. Smyth",
title = "Efficient Algorithms for Counting and Reporting
Segregating Sites in Genomic Sequences",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "1001--1010",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Shi:2007:QMB,
author = "Yi Y. Shi and Gerald A. Miller and Oleg Denisenko and
Hong Qian and Karol Bomsztyk",
title = "Quantitative Model for Binary Measurements of
Protein-Protein Interactions",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "7",
pages = "1011--1023",
month = sep,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0024;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2007",
}
@Article{Wu:2007:HPI,
author = "Xue Wu and Chau-Wen Tseng and Nathan Edwards",
title = "{HMMatch}: Peptide Identification by Spectral Matching
of Tandem Mass Spectra Using Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1025--1043",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0071",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0071;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0071",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2007",
}
@Article{Frenkel:2007:ENF,
author = "Zakharia M. Frenkel and Edward N. Trifonov",
title = "Evolutionary Networks in the Formatted Protein
Sequence Space",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1044--1057",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0066;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0066",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2007",
}
@Article{Sterner:2007:PAC,
author = "Beckett Sterner and Rohit Singh and Bonnie Berger",
title = "Predicting and Annotating Catalytic Residues: An
Information Theoretic Approach",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1058--1073",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0042;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2007",
}
@Article{Backofen:2007:LGR,
author = "Rolf Backofen and Shihyen Chen and Danny Hermelin and
Gad M. Landau and Mikhail A. Roytberg and Oren Weimann
and Kaizhong Zhang",
title = "Locality and Gaps in {RNA} Comparison",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1074--1087",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0062",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0062;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0062",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2007",
}
@Article{Bishop:2007:FEG,
author = "Morgan A. Bishop and Arkadii G. D'Yachkov and Anthony
J. Macula and Thomas E. Renz and Vyacheslav V. Rykov",
title = "Free Energy Gap and Statistical Thermodynamic Fidelity
of {DNA} Codes",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1088--1104",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2007",
}
@Article{Deforche:2007:ERC,
author = "Koen Deforche and Ricardo Camacho and Kristel {Van
Laethem} and Beth Shapiro and Yves Moreau and Andrew
Rambaut and Anne-Mieke Vandamme and Philippe Lemey",
title = "Estimating the Relative Contribution of {dNTP} Pool
Imbalance and {APOBEC3G\slash 3F} Editing to {HIV}
Evolution {{\em In Vivo\/}}",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1105--1114",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2007",
}
@Article{Stojmirovic:2007:IFI,
author = "Aleksandar Stojmirovi{\'c} and Yi-Kuo Yu",
title = "Information Flow in Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "8",
pages = "1115--1143",
month = oct,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0069;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0069",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2007",
}
@Article{Parida:2007:SSL,
author = "Laxmi Parida",
title = "Statistical Significance of Large Gene Clusters",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1145--1159",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Fu:2007:MHT,
author = "Zheng Fu and Xin Chen and Vladimir Vacic and Peng Nan
and Yang Zhong and Tao Jiang",
title = "{MSOAR}: a High-Throughput Ortholog Assignment System
Based on Genome Rearrangement",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1160--1175",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0048",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0048;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0048",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Martin:2007:IVR,
author = "Francis L. Martin and Matthew J. German and Ernst Wit
and Thomas Fearn and Narasimhan Ragavan and Hubert M.
Pollock",
title = "Identifying Variables Responsible for Clustering in
Discriminant Analysis of Data from Infrared
Microspectroscopy of a Biological Sample",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1176--1184",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0057",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0057;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0057",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Fuss:2007:DSF,
author = "Hendrik Fu{\ss} and Werner Dubitzky and C. Stephen
Downes and Mary Jo Kurth",
title = "Deactivation of {Src} Family Kinases: Hypothesis
Testing Using a {Monte Carlo} Sensitivity Analysis of
Systems-Level Properties",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1185--1200",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Shibuya:2007:ESR,
author = "Tetsuo Shibuya",
title = "Efficient Substructure {RMSD} Query Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1201--1207",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0079",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0079;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0079",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Cheng:2007:ECD,
author = "Yongxi Cheng and Ding-Zhu Du",
title = "Efficient Constructions of Disjunct Matrices with
Applications to {DNA} Library Screening",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1208--1216",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Tresch:2007:DDI,
author = "Achim Tresch and T. Beissbarth and H. S{\"u}ltmann and
R. Kuner and A. Poustka and A. Buness",
title = "Discrimination of Direct and Indirect Interactions in
a Network of Regulatory Effects",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1217--1228",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0085",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0085;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0085",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Havukkala:2007:RIP,
author = "Ilkka Havukkala and Stijn Vanderlooy",
title = "On the Reliable Identification of Plant Sequences
Containing a Polyadenylation Site",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "9",
pages = "1229--1245",
month = nov,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0058",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:50 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0058;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0058",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 November 2007",
}
@Article{Gusfield:2007:DTP,
author = "Dan Gusfield and Vikas Bansal and Vineet Bafna and Yun
S. Song",
title = "A Decomposition Theory for Phylogenetic Networks and
Incompatible Characters",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1247--1272",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2007",
}
@Article{Song:2007:ADR,
author = "Yun S. Song and Zhihong Ding and Dan Gusfield and
Charles H. Langley and Yufeng Wu",
title = "Algorithms to Distinguish the Role of Gene-Conversion
from Single-Crossover Recombination in the Derivation
of {SNP} Sequences in Populations",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1273--1286",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2007",
}
@Article{Schmidler:2007:SES,
author = "Scott C. Schmidler and Joseph E. Lucas and Terrence G.
Oas",
title = "Statistical Estimation of Statistical Mechanical
Models: Helix-Coil Theory and Peptide Helicity
Prediction",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1287--1310",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2007",
}
@Article{Zhu:2007:BHM,
author = "Dongxiao Zhu and Alfred O. {Hero III}",
title = "{Bayesian} Hierarchical Model for Large-Scale
Covariance Matrix Estimation",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1311--1326",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2007",
}
@Article{Hirsch:2007:OSS,
author = "Michael Hirsch and Stephen Swift and Xiohui Liu",
title = "Optimal Search Space for Clustering Gene Expression
Data via Consensus",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1327--1341",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2007",
}
@Article{Zhu:2007:PLS,
author = "Binhai Zhu",
title = "Protein Local Structure Alignment Under the Discrete
{Fr{\'e}chet} Distance",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1343--1351",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2007",
}
@Article{Aastrand:2007:ICM,
author = "Magnus {\AA}strand and Petter Mostad and Mats Rudemo",
title = "Improved Covariance Matrix Estimators for Weighted
Analysis of Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "14",
number = "10",
pages = "1353--1367",
month = dec,
year = "2007",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2007",
}
@Article{Picard:2008:AEN,
author = "F. Picard and J.-J. Daudin and M. Koskas and S.
Schbath and S. Robin",
title = "Assessing the Exceptionality of Network Motifs",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "1--20",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2008",
}
@Article{Andrecut:2008:SRG,
author = "M. Andrecut and S. A. Kauffman",
title = "On the Sparse Reconstruction of Gene Networks",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "21--30",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2008",
}
@Article{Lorenz:2008:ARS,
author = "W. A. Lorenz and Y. Ponty and P. Clote",
title = "Asymptotics of {RNA} Shapes",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "31--63",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2006.0153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2006.0153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2006.0153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2008",
}
@Article{Swanson:2008:IMQ,
author = "Rosemarie Swanson and Ioannis Kagiampakis and Jerry W.
Tsai",
title = "An Information Measure of the Quality of Protein
Secondary Structure Prediction",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "65--79",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 January 2008",
}
@Article{Brinza:2008:DVM,
author = "Dumitru Brinza and Alexander Zelikovsky",
title = "Design and Validation of Methods Searching for Risk
Factors in Genotype Case-Control Studies",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "81--90",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0081",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0081;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0081",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 January 2008",
}
@Article{Snir:2008:SQP,
author = "Sagi Snir and Tandy Warnow and Satish Rao",
title = "Short Quartet Puzzling: a New Quartet-Based Phylogeny
Reconstruction Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "91--103",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 January 2008",
}
@Article{Bidot:2008:MMC,
author = "C. Bidot and F. Gruy and C.-S. Haudin and F. {El
Hentati} and B. Guy and C. Lambert",
title = "Mathematical Modeling of {T}-Cell Activation Kinetic",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "1",
pages = "105--128",
month = jan,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2008",
}
@Article{Huang:2008:SAA,
author = "Xiaoqiu Huang",
title = "Sequence Alignment with an Appropriate Substitution
Matrix",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "129--138",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Jabbari:2008:NER,
author = "Hosna Jabbari and Anne Condon and Shelly Zhao",
title = "Novel and Efficient {RNA} Secondary Structure
Prediction Using Hierarchical Folding",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "139--163",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0198",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0198;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0198",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Anandakrishnan:2008:ABC,
author = "Ramu Anandakrishnan and Alexey Onufriev",
title = "Analysis of Basic Clustering Algorithms for Numerical
Estimation of Statistical Averages in Biomolecules",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "165--184",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Gebert:2008:IGG,
author = "Jutta Gebert and Susanne Motameny and Ulrich Faigle
and Christian V. Forst and Rainer Schrader",
title = "Identifying Genes of Gene Regulatory Networks Using
Formal Concept Analysis",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "185--194",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0107;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0107",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Cheng:2008:NCO,
author = "Yongxi Cheng and Ding-Zhu Du",
title = "New Constructions of One- and Two-Stage Pooling
Designs",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "195--205",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0195",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0195;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0195",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Santafe:2008:IPS,
author = "Guzm{\'a}n Santaf{\'e} and Jose A. Lozano and Pedro
Larra{\~n}aga",
title = "Inference of Population Structure Using Genetic
Markers and a {Bayesian} Model Averaging Approach for
Clustering",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "207--220",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0051;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0051",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Stolte:2008:MCE,
author = "Thomas Stolte and Volker H{\"o}sel and Johannes
M{\"u}ller and Michael Speicher",
title = "Modeling Clonal Expansion from {M-FISH} Experiments",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "2",
pages = "221--230",
month = mar,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0076",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0076;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0076",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2008",
}
@Article{Nicola:2008:NMA,
author = "George Nicola and Colin A. Smith and Ruben Abagyan",
title = "New Method for the Assessment of All Drug-Like Pockets
Across a Structural Genome",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "231--240",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2008",
}
@Article{Li:2008:PSS,
author = "Jing Li",
title = "Prioritize and Select {SNPs} for Association Studies
with Multi-Stage Designs",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "241--257",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 March 2008",
}
@Article{Haus:2008:CKS,
author = "Utz-Uwe Haus and Steffen Klamt and Tamon Stephen",
title = "Computing Knock-Out Strategies in Metabolic Networks",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "259--268",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0229",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0229;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0229",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2008",
}
@Article{Adewale:2008:PAM,
author = "A. J. Adewale and I. Dinu and J. D. Potter and Q. Liu
and Y. Yasui",
title = "Pathway Analysis of Microarray Data via Regression",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "269--277",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0002;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2008",
}
@Article{Wu:2008:CBD,
author = "Jing Wu and Jun Xie",
title = "Computation-Based Discovery of {{\em
Cis\/}}-Regulatory Modules by Hidden {Markov} Model",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "279--290",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0024;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2008",
}
@Article{Boden:2008:DNA,
author = "Mikael Bod{\'e}n and Rohan D. Teasdale",
title = "Determining Nucleolar Association from Sequence by
Leveraging Protein-Protein Interactions",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "291--304",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2008",
}
@Article{Khanin:2008:CMP,
author = "Raya Khanin and Veronica Vinciotti",
title = "Computational Modeling of Post-Transcriptional Gene
Regulation by {MicroRNAs}",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "305--316",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0184",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0184;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0184",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2008",
}
@Article{Wrabl:2008:SRP,
author = "James O. Wrabl and Nick V. Grishin",
title = "Statistics of Random Protein Superpositions:
$p$-Values for Pairwise Structure Alignment",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "3",
pages = "317--355",
month = apr,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:48:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2008",
}
@Article{Ohlebusch:2008:SEC,
author = "Enno Ohlebusch and Stefan Kurtz",
title = "Space Efficient Computation of Rare Maximal Exact
Matches between Multiple Sequences",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "357--377",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0105",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0105;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0105",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2008",
}
@Article{Polyanovsky:2008:RGP,
author = "Valery Polyanovsky and Mikhail A. Roytberg and
Vladimir G. Tumanyan",
title = "Reconstruction of Genuine Pair-Wise Sequence
Alignment",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "379--391",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2008",
}
@Article{Filkov:2008:SMM,
author = "Vladimir Filkov and Nameeta Shah",
title = "A Simple Model of the Modular Structure of
Transcriptional Regulation in Yeast",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "393--405",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0020;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0020",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 May 2008",
}
@Article{Keith:2008:DSR,
author = "Jonathan M. Keith and Peter Adams and Stuart Stephen
and John S. Mattick",
title = "Delineating Slowly and Rapidly Evolving Fractions of
the \bioname{Drosophila} Genome",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "407--430",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2008",
}
@Article{Ma:2008:UAC,
author = "Patrick C. H. Ma and Keith C. C. Chan",
title = "{UPSEC}: an Algorithm for Classifying Unaligned
Protein Sequences into Functional Families",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "431--443",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2008",
}
@Article{Tcheremenskaia:2008:PAI,
author = "Olga Tcheremenskaia and Alessandro Giuliani and
Maurizio Tomasi",
title = "{PROFALIGN} Algorithm Identifies the Regions
Containing Folding Determinants by Scoring Pairs of
Hydrophobic Profiles of Remotely Related Proteins",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "445--455",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 April 2008",
}
@Article{Feng:2008:CDA,
author = "Jian Feng and Daniel Q. Naiman and Bret Cooper",
title = "Combined Dynamic Arrays for Storing and Searching
Semi-Ordered Tandem Mass Spectrometry Data",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "4",
pages = "457--468",
month = may,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0011",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0011;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0011",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2008",
}
@Article{Do:2008:SBN,
author = "Huy Hoang Do and Kwok Pui Choi and Franco P. Preparata
and Wing Kin Sung and Louxin Zhang",
title = "Spectrum-Based {{\em {De} Novo\/}} Repeat Detection in
Genomic Sequences",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "5",
pages = "469--488",
month = jun,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 June 2008",
}
@Article{Han:2008:SAP,
author = "Buhm Han and Banu Dost and Vineet Bafna and Shaojie
Zhang",
title = "Structural Alignment of Pseudoknotted {RNA}",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "5",
pages = "489--504",
month = jun,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0214",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0214;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0214",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 June 2008",
}
@Article{Zhao:2008:FAW,
author = "Zhiyu Zhao and Bin Fu and Francisco J. Alanis and
Christopher M. Summa",
title = "Feedback Algorithm and {Web}-Server for Protein
Structure Alignment",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "5",
pages = "505--524",
month = jun,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0075",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0075;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0075",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 June 2008",
}
@Article{Macula:2008:NIP,
author = "Anthony J. Macula and Alexander Schliep and Morgan A.
Bishop and Thomas E. Renz",
title = "New, Improved, and Practical $k$-Stem Sequence
Similarity Measures for Probe Design",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "5",
pages = "525--534",
month = jun,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0208",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0208;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0208",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 June 2008",
}
@Article{Chen:2008:LTP,
author = "Zhixiang Chen and Bin Fu and Robert Schweller and
Boting Yang and Zhiyu Zhao and Binhai Zhu",
title = "Linear Time Probabilistic Algorithms for the Singular
Haplotype Reconstruction Problem from {SNP} Fragments",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "5",
pages = "535--546",
month = jun,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:03 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 June 2008",
}
@Article{Pape:2008:CPA,
author = "Utz J. Pape and Sven Rahmann and Fengzhu Sun and
Martin Vingron",
title = "Compound {Poisson} Approximation of the Number of
Occurrences of a Position Frequency Matrix {(PFM)} on
Both Strands",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "547--564",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Blum:2008:UAM,
author = "Torsten Blum and Oliver Kohlbacher",
title = "Using Atom Mapping Rules for an Improved Detection of
Relevant Routes in Weighted Metabolic Networks",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "565--576",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0044",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0044;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0044",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Kupczok:2008:EAG,
author = "Anne Kupczok and Arndt {Von Haeseler} and Steffen
Klaere",
title = "An Exact Algorithm for the Geodesic Distance between
Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "577--591",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0068",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0068;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0068",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Ling:2008:EIM,
author = "Xu Ling and Xin He and Dong Xin and Jiawei Han",
title = "Efficiently Identifying Max-Gap Clusters in Pairwise
Genome Comparison",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "593--609",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Gold:2008:RTG,
author = "David Gold and Bani Mallick and Kevin Coombes",
title = "Real-Time Gene Expression: Statistical Challenges in
Design and Inference",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "611--623",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0220",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0220;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0220",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Wong:2008:DHO,
author = "Andrew K. C. Wong and Wai-Ho Au and Keith C. C. Chan",
title = "Discovering High-Order Patterns of Gene Expression
Levels",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "625--637",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Huber:2008:CDM,
author = "Katharina T. Huber and Martin Lott and Vincent Moulton
and Andreas Spillner",
title = "The Complexity of Deriving Multi-Labeled Trees from
Bipartitions",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "6",
pages = "639--651",
month = jul,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0088",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0088;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0088",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2008",
}
@Article{Speed:2008:P,
author = "Terry Speed",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "653--653",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.P001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.P001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 September 2008",
}
@Article{Philippakis:2008:DCU,
author = "Anthony A. Philippakis and Aaron M. Qureshi and
Michael F. Berger and Martha L. Bulyk",
title = "Design of Compact, Universal {DNA} Microarrays for
Protein Binding Microarray Experiments",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "655--665",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 July 2008",
}
@Article{Wu:2008:AMC,
author = "Yufeng Wu",
title = "Association Mapping of Complex Diseases with Ancestral
Recombination Graphs: Models and Efficient Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "667--684",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 July 2008",
}
@Article{Schulz-Trieglaff:2008:CQP,
author = "Ole Schulz-Trieglaff and Rene Hussong and Clemens
Gr{\"o}pl and Andreas Leinenbach and Andreas
Hildebrandt and Christian Huber and Knut Reinert",
title = "Computational Quantification of Peptides from {LC-MS}
Data",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "685--704",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2008",
}
@Article{Bern:2008:IRF,
author = "Marshall Bern and David Goldberg",
title = "Improved Ranking Functions for Protein and
Modification-Site Identifications",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "705--719",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0119",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0119;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0119",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 July 2008",
}
@Article{Wexler:2008:VUL,
author = "Ydo Wexler and Dan Geiger",
title = "Variational Upper and Lower Bounds for Probabilistic
Graphical Models",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "721--735",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2008",
}
@Article{Schneidman-Duhovny:2008:DPD,
author = "Dina Schneidman-Duhovny and Oranit Dror and Yuval
Inbar and Ruth Nussinov and Haim J. Wolfson",
title = "Deterministic Pharmacophore Detection via Multiple
Flexible Alignment of Drug-Like Molecules",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "737--754",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0130",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0130;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0130",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2008",
}
@Article{Kamisetty:2008:FEE,
author = "Hetunandan Kamisetty and Eric P. Xing and Christopher
J. Langmead",
title = "Free Energy Estimates of All-Atom Protein Structures
Using Generalized Belief Propagation",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "755--766",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0131",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0131;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0131",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2008",
}
@Article{Lu:2008:MSA,
author = "Yue Lu and Sing-Hoi Sze",
title = "Multiple Sequence Alignment Based on Profile Alignment
of Intermediate Sequences",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "767--777",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0132",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0132;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0132",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2008",
}
@Article{Kuwahara:2008:PPT,
author = "Hiroyuki Kuwahara and Chris J. Myers",
title = "Production-Passage-Time Approximation: a New
Approximation Method to Accelerate the Simulation
Process of Enzymatic Reactions",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "779--792",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0135;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0135",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2008",
}
@Article{Ozery-Flato:2008:SGC,
author = "Michal Ozery-Flato and Ron Shamir",
title = "Sorting Genomes with Centromeres by Translocations",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "793--812",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2008",
}
@Article{Nigham:2008:PCF,
author = "Anshul Nigham and David Hsu",
title = "Protein Conformational Flexibility Analysis with Noisy
Data",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "813--828",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0138",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0138;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0138",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2008",
}
@Article{Murali:2008:NLB,
author = "T. M. Murali and Corban G. Rivera",
title = "Network {Legos}: Building Blocks of Cellular Wiring
Diagrams",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "829--844",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2008",
}
@Article{Piccolboni:2008:MSA,
author = "Antonio Piccolboni",
title = "Multivariate Segmentation in the Analysis of
Transcription Tiling Array Data",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "845--856",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0141",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0141;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0141",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2008",
}
@Article{Wang:2008:EGW,
author = "Wenyi Wang and Benilton Carvalho and Nathaniel D.
Miller and Jonathan Pevsner and Aravinda Chakravarti
and Rafael A. Irizarry",
title = "Estimating Genome-Wide Copy Number Using
Allele-Specific Mixture Models",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "857--866",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2008",
}
@Article{Yu:2008:SVT,
author = "Chun-Nam John Yu and Thorsten Joachims and Ron Elber
and Jaroslaw Pillardy",
title = "Support Vector Training of Protein Alignment Models",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "867--880",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0152;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2008",
}
@Article{Lee:2008:RFI,
author = "Wah-Heng Lee and Wing-Kin Sung",
title = "{RB-Finder}: an Improved Distance-Based Sliding Window
Method to Detect Recombination Breakpoints",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "881--898",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0154;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2008",
}
@Article{Yanover:2008:MLE,
author = "Chen Yanover and Ora Schueler-Furman and Yair Weiss",
title = "Minimizing and Learning Energy Functions for
Side-Chain Prediction",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "899--911",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0158",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0158;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0158",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2008",
}
@Article{Dost:2008:QTQ,
author = "Banu Dost and Tomer Shlomi and Nitin Gupta and Eytan
Ruppin and Vineet Bafna and Roded Sharan",
title = "{QNet}: a Tool for Querying Protein Interaction
Networks",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "913--925",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2008",
}
@Article{Zaitlen:2008:SIA,
author = "Noah Zaitlen and Manuel Reyes-Gomez and David
Heckerman and Nebojsa Jojic",
title = "Shift-Invariant Adaptive Double Threading: Learning
{MHC} {II--Peptide} Binding",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "7",
pages = "927--942",
month = sep,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0183",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0183;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0183",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 September 2008",
}
@Article{Tesler:2008:P,
author = "Glenn Tesler and Dannie Durand",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "943--946",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.P002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.P002;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.P002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2008",
}
@Article{Zheng:2008:DWG,
author = "Chunfang Zheng and Qian Zhu and David Sankoff",
title = "Descendants of Whole Genome Duplication within Gene
Order Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "947--964",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0118",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0118;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0118",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 September 2008",
}
@Article{Xia:2008:RAA,
author = "Ai Xia and Maria V. Sharakhova and Igor V. Sharakhov",
title = "Reconstructing Ancestral Autosomal Arrangements in the
\bioname{Anopheles gambiae} Complex",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "965--980",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0076",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0076;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0076",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 September 2008",
}
@Article{Vernot:2008:RNB,
author = "Benjamin Vernot and Maureen Stolzer and Aiton Goldman
and Dannie Durand",
title = "Reconciliation with Non-Binary Species Trees",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "981--1006",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2008",
}
@Article{Ma:2008:DRC,
author = "Jian Ma and Aakrosh Ratan and Brian J. Raney and
Bernard B. Suh and Louxin Zhang and Webb Miller and
David Haussler",
title = "{DUPCAR}: Reconstructing Contiguous Ancestral Regions
with Duplications",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1007--1027",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0069;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0069",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 September 2008",
}
@Article{Gog:2008:FAT,
author = "Simon Gog and Martin Bader",
title = "Fast Algorithms for Transforming Back and Forth
between a Signed Permutation and Its Equivalent Simple
Permutation",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1029--1041",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0040",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0040;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0040",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2008",
}
@Article{Chauve:2008:GFE,
author = "Cedric Chauve and Jean-Philippe Doyon and Nadia
El-Mabrouk",
title = "Gene Family Evolution by Duplication, Speciation, and
Loss",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1043--1062",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0054",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0054;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0054",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2008",
}
@Article{Bertrand:2008:IAG,
author = "Denis Bertrand and Mathieu Lajoie and Nadia
El-Mabrouk",
title = "Inferring Ancestral Gene Orders for a Family of
Tandemly Arrayed Genes",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1063--1077",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2008",
}
@Article{Arndt:2008:IRM,
author = "William Arndt and Jijun Tang",
title = "Improving Reversal Median Computation Using Commuting
Reversals and Cycle Information",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1079--1092",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 September 2008",
}
@Article{Angibaud:2008:ETC,
author = "S{\'e}bastien Angibaud and Guillaume Fertin and Irena
Rusu and Annelyse Th{\'e}venin and St{\'e}phane
Vialette",
title = "Efficient Tools for Computing the Number of
Breakpoints and the Number of Adjacencies between Two
Genomes with Duplicate Genes",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1093--1115",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0061",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0061;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0061",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 September 2008",
}
@Article{Alekseyev:2008:MBR,
author = "Max A. Alekseyev",
title = "Multi-Break Rearrangements and Breakpoint Re-Uses:
From Circular to Linear Genomes",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1117--1131",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0080",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0080;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0080",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 September 2008",
}
@Article{Anonymous:2008:C,
author = "Anonymous",
title = "Correction",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "8",
pages = "1132--1132",
month = oct,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.C002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.C002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2008",
}
@Article{Parida:2008:EAR,
author = "Laxmi Parida and Marta Mel{\'e} and Francesc Calafell
and Jaume Bertranpetit",
title = "Estimating the Ancestral Recombinations Graph {(ARG)}
as Compatible Networks of {SNP} Patterns",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1133--1153",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0065;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0065",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 October 2008",
}
@Article{Kennedy:2008:GED,
author = "Justin Kennedy and Ion M{\u{a}}ndoiu and Bogdan
Pa{\c{s}}aniuc",
title = "Genotype Error Detection Using Hidden {Markov} Models
of Haplotype Diversity",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1155--1171",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2008",
}
@Article{Andrecut:2008:HAS,
author = "M. Andrecut and S. Huang and S. A. Kauffman",
title = "Heuristic Approach to Sparse Approximation of Gene
Regulatory Networks",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1173--1186",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0087;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0087",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 October 2008",
}
@Article{Newberg:2008:SGS,
author = "Lee A. Newberg",
title = "Significance of Gapped Sequence Alignments",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1187--1194",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2008",
}
@Article{Han:2008:PRS,
author = "Hillary S. W. Han and Christian M. Reidys",
title = "Pseudoknot {RNA} Structures with Arc-Length $ \geq 4
$",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1195--1208",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0051;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0051",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2008",
}
@Article{Mardia:2008:SVP,
author = "Kanti V. Mardia and Vysaul B. Nyirongo",
title = "Simulating Virtual Protein {$ C_\alpha $} Traces with
Applications",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1209--1220",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2008",
}
@Article{Diaz:2008:APP,
author = "Mar{\'\i}a Elena D{\'\i}az and Guillermo Ayala and
Teresa Le{\'o}n and Roberto Zoncu and Derek Toomre",
title = "Analyzing Protein-Protein Spatial-Temporal
Dependencies from Image Sequences Using Fuzzy Temporal
Random Sets",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "9",
pages = "1221--1236",
month = nov,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0055",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0055;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0055",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2008",
}
@Article{Jiang:2008:CRP,
author = "Xianyang Jiang and Dominique Lavenier and Stephen
S.-T. Yau",
title = "Coding Region Prediction Based on a Universal {DNA}
Sequence Representation Method",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1237--1256",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0041;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0041",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{Ma:2008:CRP,
author = "Gang Ma and Christian M. Reidys",
title = "Canonical {RNA} Pseudoknot Structures",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1257--1273",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0121;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0121",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{Xiao:2008:EVA,
author = "Jing Xiao and Lusheng Wang and Xiaowen Liu and Tao
Jiang",
title = "An Efficient Voting Algorithm for Finding Additive
Biclusters with Random Background",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1275--1293",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 October 2010",
}
@Article{Yang:2008:RPS,
author = "Jialiang Yang and Louxin Zhang",
title = "Run Probabilities of Seed-Like Patterns and
Identifying Good Transition Seeds",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1295--1313",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{Lijoi:2008:BNA,
author = "Antonio Lijoi and Rams{\'e}s H. Mena and Igor
Pr{\"u}nster",
title = "A {Bayesian} Nonparametric Approach for Comparing
Clustering Structures in {EST} Libraries",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1315--1327",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0043",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0043;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0043",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{vanUitert:2008:BSB,
author = "Miranda van Uitert and Wouter Meuleman and Lodewyk
Wessels",
title = "Biclustering Sparse Binary Genomic Data",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1329--1345",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0066;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0066",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{Tang:2008:BFB,
author = "Man-Hung Eric Tang and Anders Krogh and Ole Winther",
title = "{BayesMD}: Flexible Biological Modeling for Motif
Discovery",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1347--1363",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0176",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0176;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0176",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{Porreca:2008:SIP,
author = "Riccardo Porreca and Samuel Drulhe and Hidde de Jong
and Giancarlo Ferrari-Trecate",
title = "Structural Identification of Piecewise-Linear Models
of Genetic Regulatory Networks",
journal = j-J-COMPUT-BIOL,
volume = "15",
number = "10",
pages = "1365--1380",
month = dec,
year = "2008",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0109",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0109;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0109",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2008",
}
@Article{Newberg:2009:ECD,
author = "Lee A. Newberg and Charles E. Lawrence",
title = "Exact Calculation of Distributions on Integers, with
Application to Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "1--18",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2009",
}
@Article{Khodabakhshi:2009:SSA,
author = "Alireza Hadj Khodabakhshi and J{\'a}n Ma{\v{n}}uch and
Arash Rafiey and Arvind Gupta",
title = "Stable Structure-Approximating Inverse Protein Folding
in {$2$D} Hydrophobic-Polar-Cysteine {(HPC)} Model",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "19--30",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2008",
}
@Article{Kong:2009:SDP,
author = "Yong Kong",
title = "Statistical Distributions of Pyrosequencing",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "31--42",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2008",
}
@Article{Bonizzoni:2009:DAG,
author = "Paola Bonizzoni and Giancarlo Mauri and Graziano
Pesole and Ernesto Picardi and Yuri Pirola and
Raffaella Rizzi",
title = "Detecting Alternative Gene Structures from Spliced
{ESTs}: a Computational Approach",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "43--66",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0028",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0028;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0028",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2009",
}
@Article{Passos:2009:ODO,
author = "Val{\'e}ria Lima Passos and Frans E. S. Tan and Bjorn
Winkens and Martijn P. F. Berger",
title = "Optimal Designs for One- and Two-Color Microarrays
Using Mixed Models: a Comparative Evaluation of Their
Efficiencies",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "67--83",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0048",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0048;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0048",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2008",
}
@Article{Hoque:2009:EHM,
author = "Tamjidul Hoque and Madhu Chetty and Abdul Sattar",
title = "Extended {HP} Model for Protein Structure Prediction",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "85--103",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0082",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0082;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0082",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2009",
}
@Article{Libeskind-Hadas:2009:CCR,
author = "Ran Libeskind-Hadas and Michael A. Charleston",
title = "On the Computational Complexity of the Reticulate
Cophylogeny Reconstruction Problem",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "105--117",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2009",
}
@Article{Ge:2009:BNA,
author = "Hao Ge and Min Qian",
title = "{Boolean} Network Approach to Negative Feedback Loops
of the p53 Pathways: Synchronized Dynamics and
Stochastic Limit Cycles",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "1",
pages = "119--132",
month = jan,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0181;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2009",
}
@Article{Leung:2009:PPC,
author = "Henry C. M. Leung and Qian Xiang and S. M. Yiu and
Francis Y. L. Chin",
title = "Predicting Protein Complexes from {PPI} Data: a
Core-Attachment Approach",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "133--144",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.01TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.01TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.01TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Qian:2009:QPP,
author = "Xiaoning Qian and Sing-Hoi Sze and Byung-Jun Yoon",
title = "Querying Pathways in Protein Interaction Networks
Based on Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "145--157",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.02TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.02TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.02TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Hormozdiari:2009:EID,
author = "Fereydoun Hormozdiari and Raheleh Salari and Michael
Hsing and Alexander Sch{\"o}nhuth and Simon K. Chan and
S. Cenk Sahinalp and Artem Cherkasov",
title = "The Effect of Insertions and Deletions on Wirings in
Protein-Protein Interaction Networks: a Large-Scale
Study",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "159--167",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.03TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.03TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.03TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{McDermott:2009:BHI,
author = "Jason E. McDermott and Ronald C. Taylor and Hyunjin
Yoon and Fred Heffron",
title = "Bottlenecks and Hubs in Inferred Networks Are
Important for Virulence in \bioname{Salmonella
typhimurium}",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "169--180",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.04TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.04TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.04TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Karni:2009:NBM,
author = "Shaul Karni and Hermona Soreq and Roded Sharan",
title = "A Network-Based Method for Predicting Disease-Causing
Genes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "181--189",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.05TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.05TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.05TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Borenstein:2009:TSS,
author = "Elhanan Borenstein and Marcus W. Feldman",
title = "Topological Signatures of Species Interactions in
Metabolic Networks",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "191--200",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.06TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.06TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.06TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Sachs:2009:LSN,
author = "Karen Sachs and Solomon Itani and Jennifer Carlisle
and Garry P. Nolan and Dana Pe'er and Douglas A.
Lauffenburger",
title = "Learning Signaling Network Structures with Sparsely
Distributed Data",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "201--212",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.07TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.07TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.07TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Castelo:2009:REM,
author = "Robert Castelo and Alberto Roverato",
title = "Reverse Engineering Molecular Regulatory Networks from
Microarray Data with qp-Graphs",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "213--227",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.08TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.08TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.08TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2009",
}
@Article{Marbach:2009:GRS,
author = "Daniel Marbach and Thomas Schaffter and Claudio
Mattiussi and Dario Floreano",
title = "Generating Realistic {{\em In Silico\/}} Gene Networks
for Performance Assessment of Reverse Engineering
Methods",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "229--239",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.09TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.09TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.09TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 January 2009",
}
@Article{Iorio:2009:IND,
author = "Francesco Iorio and Roberto Tagliaferri and Diego di
Bernardo",
title = "Identifying Network of Drug Mode of Action by Gene
Expression Profiling",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "241--251",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.10TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.10TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.10TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 January 2009",
}
@Article{Navlakha:2009:RBM,
author = "Saket Navlakha and Michael C. Schatz and Carl
Kingsford",
title = "Revealing Biological Modules via Graph Summarization",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "253--264",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.11TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.11TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.11TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 January 2009",
}
@Article{Chen:2009:IBK,
author = "Xi Chen and Lily Wang",
title = "Integrating Biological Knowledge with Gene Expression
Profiles for Survival Prediction of Cancer",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "265--278",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.12TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.12TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.12TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 January 2009",
}
@Article{Chechik:2009:TGE,
author = "Gal Chechik and Daphne Koller",
title = "Timing of Gene Expression Responses to Environmental
Changes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "279--290",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.13TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.13TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.13TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Veeramani:2009:MFC,
author = "Balaji Veeramani and Joel S. Bader",
title = "Metabolic Flux Correlations, Genetic Interactions, and
Disease",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "291--302",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.14TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.14TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.14TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 January 2009",
}
@Article{Tuller:2009:HOG,
author = "Tamir Tuller and Udi Rubinstein and Dani Bar and
Michael Gurevitch and Eytan Ruppin and Martin Kupiec",
title = "Higher-Order Genomic Organization of Cellular
Functions in Yeast",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "303--316",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.15TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.15TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.15TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Li:2009:GGA,
author = "Leping Li",
title = "{GADEM}: a Genetic Algorithm Guided Formation of
Spaced Dyads Coupled with an {EM} Algorithm for Motif
Discovery",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "317--329",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.16TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.16TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.16TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Lee:2009:SLE,
author = "J. William Lee and Tomasz Zemojtel and Eugene
Shakhnovich",
title = "Systems-Level Evidence of Transcriptional
Co-Regulation of Yeast Protein Complexes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "331--339",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.17TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.17TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.17TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Yuan:2009:TRH,
author = "Guo-Cheng Yuan",
title = "Targeted Recruitment of Histone Modifications in
Humans Predicted by Genomic Sequences",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "341--355",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.18TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.18TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.18TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Yeo:2009:ITF,
author = "Zhen Xuan Yeo and Hock Chuan Yeo and Joan Keng Suan
Yeo and Ai Li Yeo and Ye Li and Neil D. Clarke",
title = "Inferring Transcription Factor Targets from Gene
Expression Changes and Predicted Promoter Occupancy",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "357--368",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.19TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.19TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.19TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Erives:2009:NHS,
author = "Albert Erives",
title = "Non-Homologous Structured {CRMs} from the
\bioname{Ciona} Genome",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "369--377",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.20TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.20TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.20TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2009",
}
@Article{Russo:2009:HSB,
author = "G. Russo and M. {Di Bernardo}",
title = "How to Synchronize Biological Clocks",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "379--393",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.21TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.21TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.21TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 January 2009",
}
@Article{Kluge:2009:MEA,
author = "Bogusaw Kluge and Anna Gambin and Wojciech Niemiro",
title = "Modeling Exopeptidase Activity from {LC-MS} Data",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "2",
pages = "395--406",
month = feb,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.22TT",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.22TT;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.22TT",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 January 2009",
}
@Article{Shojaie:2009:AGS,
author = "Ali Shojaie and George Michailidis",
title = "Analysis of Gene Sets Based on the Underlying
Regulatory Network",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "407--426",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0081",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0081;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0081",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 October 2010",
}
@Article{Gu:2009:OEP,
author = "Junfeng Gu and Honglin Li and Hualiang Jiang and
Xicheng Wang",
title = "Optimizing Energy Potential for Protein Fold
Recognition with Parametric Evaluation Function",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "427--442",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0128",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0128;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0128",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2009",
}
@Article{Lacey:2009:SEP,
author = "Michelle R. Lacey and Jason Calmes",
title = "A Sharp Error Probability Estimate for the
Reconstruction of Phylogenetic Quartets by the
Four-Point Method",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "443--456",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0123",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0123;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0123",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2009",
}
@Article{Min:2009:LRW,
author = "Renqiang Min and Anthony Bonner and Jingjing Li and
Zhaolei Zhang",
title = "Learned Random-Walk Kernels and Empirical-Map Kernels
for Protein Sequence Classification",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "457--474",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2009",
}
@Article{Blanchet:2009:MBA,
author = "Juliette Blanchet and Matthieu Vignes",
title = "A Model-Based Approach to Gene Clustering with Missing
Observation Reconstruction in a {Markov} Random Field
Framework",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "475--486",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2009",
}
@Article{Grandison:2009:AZM,
author = "Scott Grandison and Carl Roberts and Richard J.
Morris",
title = "The Application of {$3$D} {Zernike} Moments for the
Description of ``Model-Free'' Molecular Structure,
Functional Motion, and Structural Reliability",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "487--500",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2009",
}
@Article{Soloveichik:2009:RSC,
author = "David Soloveichik",
title = "Robust Stochastic Chemical Reaction Networks and
Bounded {Tau}-Leaping",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "3",
pages = "501--522",
month = mar,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0063;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0063",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2009",
}
@Article{Dynerman:2009:CCG,
author = "David Dynerman and Erick Butzlaff and Julie C.
Mitchell",
title = "{CUSA} and {CUDE}: {GPU-Accelerated} Methods for
Estimating Solvent Accessible Surface Area and
Desolvation",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "523--537",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Ribeiro:2009:DSM,
author = "Andre S. Ribeiro and Olli-Pekka Smolander and Tiina
Rajala and Antti H{\"a}kkinen and Olli Yli-Harja",
title = "Delayed Stochastic Model of Transcription at the
Single Nucleotide Level",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "539--553",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Ilatovskiy:2009:GWS,
author = "Andrey Ilatovskiy and Michael Petukhov",
title = "Genome-Wide Search for Local {DNA} Segments with
Anomalous {GC-Content}",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "555--564",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0159",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0159;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0159",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Tembe:2009:SCF,
author = "Waibhav D. Tembe and John V. Pearson and Nils Homer
and James Lowey and Edward Suh and David W. Craig",
title = "Statistical Comparison Framework and Visualization
Scheme for Ranking-Based Algorithms in High-Throughput
Genome-Wide Studies",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "565--577",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Stojmirovic:2009:GAB,
author = "Aleksandar Stojmirovi{\'c} and Yi-Kuo Yu",
title = "Geometric Aspects of Biological Sequence Comparison",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "579--610",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Dombi:2009:AFT,
author = "J{\'o}zsef Dombi and Attila Kert{\'e}sz-Farkas",
title = "Applying Fuzzy Technologies to Equivalence Learning in
Protein Classification",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "611--623",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Southworth:2009:PBP,
author = "Lucinda K. Southworth and Stuart K. Kim and Art B.
Owen",
title = "Properties of Balanced Permutations",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "4",
pages = "625--638",
month = apr,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2009",
}
@Article{Liu:2009:CGM,
author = "Yan Liu and Jaime Carbonell and Vanathi Gopalakrishnan
and Peter Weigele",
title = "Conditional Graphical Models for Protein Structural
Motif Recognition",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "639--657",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0176",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0176;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0176",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{Seok:2009:FAC,
author = "Sang-Cheol Seok and Michael Evans and Veronica J.
Vieland",
title = "Fast and Accurate Calculation of a Computationally
Intensive Statistic for Mapping Disease Genes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "659--676",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0175",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0175;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0175",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{DeMol:2009:RMS,
author = "Christine {De Mol} and Sofia Mosci and Magali Traskine
and Alessandro Verri",
title = "A Regularized Method for Selecting Nested Groups of
Relevant Genes from Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "677--690",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{Yang:2009:PCH,
author = "Zheng Rong Yang",
title = "Predict Collagen Hydroxyproline Sites Using Support
Vector Machines",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "691--702",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0167",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0167;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0167",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{Georgiev:2009:IND,
author = "Alexander G. Georgiev",
title = "Interpretable Numerical Descriptors of Amino Acid
Space",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "703--723",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{Haus:2009:LIP,
author = "Utz-Uwe Haus and Kathrin Niermann and Klaus Truemper
and Robert Weismantel",
title = "Logic Integer Programming Models for Signaling
Networks",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "725--743",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{Chang:2009:MSC,
author = "Ye-In Chang and Jiun-Rung Chen and Yueh-Chi Tsai",
title = "Mining Subspace Clusters from {DNA} Microarray Data
Using Large Itemset Techniques",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "5",
pages = "745--768",
month = may,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2009",
}
@Article{Khodabakhshi:2009:IPF,
author = "Alireza Hadj Khodabakhshi and J{\'a}n Ma{\v{n}}uch and
Arash Rafiey and Arvind Gupta",
title = "Inverse Protein Folding in {$3$D} Hexagonal Prism
Lattice under {HPC} Model",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "769--802",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0202",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0202;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0202",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Chen:2009:AMP,
author = "Ho-Lin Chen and Anne Condon and Hosna Jabbari",
title = "An {$O$} ( $ n^5$ ) Algorithm for {MFE} Prediction of
Kissing Hairpins and $4$-Chains in Nucleic Acids",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "803--815",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Kong:2009:SDS,
author = "Yong Kong",
title = "Statistical Distributions of Sequencing by Synthesis
with Probabilistic Nucleotide Incorporation",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "817--827",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0215;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Behre:2009:MST,
author = "J{\"o}rn Behre and Stefan Schuster",
title = "Modeling Signal Transduction in Enzyme Cascades with
the Concept of Elementary Flux Modes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "829--844",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0177",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0177;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0177",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Hansen:2009:SML,
author = "Niels Richard Hansen",
title = "Statistical Models for Local Occurrences of {RNA}
Structures",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "845--858",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0180",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0180;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0180",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Geraci:2009:KBS,
author = "Filippo Geraci and Mauro Leoncini and Manuela
Montangero and Marco Pellegrini and M. Elena Renda",
title = "{K-Boost}: a Scalable Algorithm for High-Quality
Clustering of Microarray Gene Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "859--873",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0201;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0201",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{August:2009:NCT,
author = "Elias August and Antonis Papachristodoulou",
title = "A New Computational Tool for Establishing Model
Parameter Identifiability",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "875--885",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0211",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0211;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0211",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Anonymous:2009:C,
author = "Anonymous",
title = "Correction",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "6",
pages = "886--886",
month = jun,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.00C1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.00C1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2009",
}
@Article{Huang:2009:MSN,
author = "Xiaoqiu Huang and Martin Vingron",
title = "Maximum Similarity: a New Formulation of Phylogenetic
Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "887--896",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0232;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Nagarajan:2009:PCS,
author = "Niranjan Nagarajan and Mihai Pop",
title = "Parametric Complexity of Sequence Assembly: Theory and
Applications to Next Generation Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "897--908",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Andrecut:2009:MIT,
author = "M. Andrecut and D. Foster and H. Carteret and S. A.
Kauffman",
title = "Maximal Information Transfer and Behavior Diversity in
Random Threshold Networks",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "909--916",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Cai:2009:SMS,
author = "Xiaodong Cai and Zhi-Min Yuan",
title = "Stochastic Modeling and Simulation of the
{p53-MDM2/MDMX} Loop",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "917--933",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0231",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0231;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0231",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Qiu:2009:SCD,
author = "Peng Qiu and Sylvia K. Plevritis",
title = "Simultaneous Class Discovery and Classification of
Microarray Data Using Spectral Analysis",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "935--944",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Kato:2009:DPA,
author = "Yuki Kato and Tatsuya Akutsu and Hiroyuki Seki",
title = "Dynamic Programming Algorithms and Grammatical
Modeling for Protein Beta-Sheet Prediction",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "945--957",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0228;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0228",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Bartholome:2009:EGI,
author = "Kilian Bartholom{\'e} and Clemens Kreutz and Jens
Timmer",
title = "Estimation of Gene Induction Enables a Relevance-Based
Ranking of Gene Sets",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "7",
pages = "959--967",
month = jul,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0226",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0226;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0226",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2009",
}
@Article{Anonymous:2009:SRI,
author = "Anonymous",
title = "Special {RECOMB 2008} Issue",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "969--969",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.001P",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.001P",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2009",
}
@Article{Friedel:2009:BIU,
author = "Caroline C. Friedel and Jan Krumsiek and Ralf Zimmer",
title = "Bootstrapping the Interactome: Unsupervised
Identification of Protein Complexes in Yeast",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "971--987",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2009",
}
@Article{Kalaev:2009:FAA,
author = "Maxim Kalaev and Vineet Bafna and Roded Sharan",
title = "Fast and Accurate Alignment of Multiple Protein
Networks",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "989--999",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 July 2009",
}
@Article{Flannick:2009:APL,
author = "Jason Flannick and Antal Novak and Chuong B. Do and
Balaji S. Srinivasan and Serafim Batzoglou",
title = "Automatic Parameter Learning for Multiple Local
Network Alignment",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1001--1022",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0099",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0099;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0099",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Mehan:2009:INA,
author = "Michael R. Mehan and Juan Nunez-Iglesias and Mrinal
Kalakrishnan and Michael S. Waterman and Xianghong
Jasmine Zhou",
title = "An Integrative Network Approach to Map the
Transcriptome to the Phenome",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1023--1034",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0037",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0037;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0037",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2009",
}
@Article{Shi:2009:CEI,
author = "Yanxin Shi and Michael Klutstein and Itamar Simon and
Tom Mitchell and Ziv Bar-Joseph",
title = "A Combined Expression-Interaction Model for Inferring
the Temporal Activity of Transcription Factors",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1035--1049",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0024;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2009",
}
@Article{Zhang:2009:EHR,
author = "Yu Zhang and Giltae Song and Tom{\'a}{\v{s}}
Vina{\v{r}} and Eric D. Green and Adam Siepel and Webb
Miller",
title = "Evolutionary History Reconstruction for Mammalian
Complex Gene Clusters",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1051--1070",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0040",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0040;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0040",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Burleigh:2009:LLS,
author = "J. G. Burleigh and M. S. Bansal and A. Wehe and O.
Eulenstein",
title = "Locating Large-Scale Gene Duplication Events through
Reconciled Trees: Implications for Identifying Ancient
Polyploidy Events in Plants",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1071--1083",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2009",
}
@Article{Bocker:2009:CMG,
author = "Sebastian B{\"o}cker and Katharina Jahn and Julia
Mixtacki and Jens Stoye",
title = "Computation of Median Gene Clusters",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1085--1099",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2009",
}
@Article{Medvedev:2009:MLG,
author = "Paul Medvedev and Michael Brudno",
title = "Maximum Likelihood Genome Assembly",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1101--1116",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0047",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0047;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0047",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Sammeth:2009:CAS,
author = "Michael Sammeth",
title = "Complete Alternative Splicing Events Are Bubbles in
Splicing Graphs",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1117--1140",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2009",
}
@Article{Bercovici:2009:IAE,
author = "Sivan Bercovici and Dan Geiger",
title = "Inferring Ancestries Efficiently in Admixed
Populations with Linkage Disequilibrium",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1141--1150",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0105",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0105;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0105",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Zheng:2009:AJO,
author = "Wei Zheng and Alan M. Friedman and Chris
Bailey-Kellogg",
title = "Algorithms for Joint Optimization of Stability and
Diversity in Planning Combinatorial Libraries of
Chimeric Proteins",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1151--1168",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Datta:2009:SFU,
author = "Ritendra Datta and Marshall Bern",
title = "Spectrum Fusion: Using Multiple Mass Spectra for {De}
{Novo} Peptide Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1169--1182",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0122;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Li:2009:BAP,
author = "Yong Fuga Li and Randy J. Arnold and Yixue Li and
Predrag Radivojac and Quanhu Sheng and Haixu Tang",
title = "A {Bayesian} Approach to Protein Inference Problem in
Shotgun Proteomics",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "8",
pages = "1183--1193",
month = aug,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0018",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0018;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0018",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2009",
}
@Article{Sehl:2009:ASS,
author = "Mary Sehl and Alexander V. Alekseyenko and Kenneth L.
Lange",
title = "Accurate Stochastic Simulation via the Step
Anticipation $ \tau $-Leaping {(SAL)} Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1195--1208",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Jensen:2009:NLM,
author = "Jens Ledet Jensen",
title = "A Note on the Linear Memory {Baum--Welch} Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1209--1210",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Eng:2009:NDM,
author = "Catherine Eng and Charu Asthana and Bertrand Aigle and
S{\'e}bastien Hergalant and Jean-Fran{\c{c}}ois Mari
and Pierre Leblond",
title = "A New Data Mining Approach for the Detection of
Bacterial Promoters Combining Stochastic and
Combinatorial Methods",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1211--1225",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0122;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{BenHassen:2009:IST,
author = "Hanen {Ben Hassen} and Afif Masmoudi and Ahmed Rebai",
title = "Inference in Signal Transduction Pathways Using {EM}
Algorithm and an Implicit Algorithm: Incomplete Data
Case",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1227--1240",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Cheng:2009:SOM,
author = "Qiang Cheng and Jie Cheng",
title = "Sparsity Optimization Method for Multivariate Feature
Screening for Gene Expression Analysis",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1241--1252",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0034",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0034;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0034",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Jun:2009:DMD,
author = "Jin Jun and Paul Ryvkin and Edward Hemphill and Craig
Nelson",
title = "Duplication Mechanism and Disruptions in Flanking
Regions Determine the Fate of Mammalian Gene
Duplicates",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1253--1266",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0074",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0074;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0074",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Jean:2009:MSG,
author = "G{\'e}raldine Jean and David James Sherman and Macha
Nikolski",
title = "Mining the Semantics of Genome Super-Blocks to Infer
Ancestral Architectures",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "9",
pages = "1267--1284",
month = sep,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0046",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0046;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0046",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Nelson:2009:RCG,
author = "Craig Nelson and St{\'e}phane Vialette",
title = "{RECOMB--Comparative} Genomics Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1285--1286",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.002P",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.002P",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2009",
}
@Article{Berard:2009:CPD,
author = "S{\`e}verine B{\'e}rard and Annie Chateau and Cedric
Chauve and Christophe Paul and Eric Tannier",
title = "Computation of Perfect {DCJ} Rearrangement Scenarios
with Linear and Circular Chromosomes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1287--1309",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0088",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0088;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0088",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2009",
}
@Article{Yancopoulos:2009:DPF,
author = "Sophia Yancopoulos and Richard Friedberg",
title = "{DCJ} Path Formulation for Genome Transformations
which Include Insertions, Deletions, and Duplications",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1311--1338",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2009",
}
@Article{Swenson:2009:HSI,
author = "Krister M. Swenson and Yu Lin and Vaibhav Rajan and
Bernard M. E. Moret",
title = "Hurdles and Sorting by Inversions: Combinatorial,
Statistical, and Experimental Results",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1339--1351",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 September 2009",
}
@Article{Sankoff:2009:TIR,
author = "David Sankoff and Chunfang Zheng and P. Kerr Wall and
Claude dePamphilis and Jim Leebens-Mack and Victor A.
Albert",
title = "Towards Improved Reconstruction of Ancestral Gene
Order in Angiosperm Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1353--1367",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2009",
}
@Article{Xu:2009:FEA,
author = "Andrew Wei Xu",
title = "A Fast and Exact Algorithm for the Median of Three
Problem: a Graph Decomposition Approach",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1369--1381",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0087;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0087",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 September 2009",
}
@Article{Zhang:2009:GTT,
author = "Melvin Zhang and Hon Wai Leong",
title = "Gene Team Tree: a Hierarchical Representation of Gene
Teams for All Gap Lengths",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1383--1398",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0093",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0093;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0093",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2009",
}
@Article{Doyon:2009:SGS,
author = "Jean-Philippe Doyon and Cedric Chauve and Sylvie
Hamel",
title = "Space of Gene/Species Trees Reconciliations and
Parsimonious Models",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1399--1418",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2009",
}
@Article{Schrider:2009:AHS,
author = "Daniel R. Schrider and James C. Costello and Matthew
W. Hahn",
title = "All Human-Specific Gene Losses Are Present in the
Genome as Pseudogenes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1419--1427",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0085",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0085;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0085",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2009",
}
@Article{Jun:2009:BNG,
author = "Jin Jun and Paul Ryvkin and Edward Hemphill and Ion
Mandoiu and Craig Nelson",
title = "The Birth of New Genes by {RNA}- and {DNA}-Mediated
Duplication during Mammalian Evolution",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1429--1444",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2009",
}
@Article{Ozery-Flato:2009:SCK,
author = "Michal Ozery-Flato and Ron Shamir",
title = "Sorting Cancer Karyotypes by Elementary Operations",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1445--1460",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2009",
}
@Article{Diallo:2009:WGS,
author = "Abdoulaye Banir{\'e} Diallo and Dunarel Badescu and
Mathieu Blanchette and Vladimir Makarenkov",
title = "A Whole Genome Study and Identification of Specific
Carcinogenic Regions of the Human Papilloma Viruses",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1461--1473",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0091;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0091",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2009",
}
@Article{Bertrand:2009:GMR,
author = "Denis Bertrand and Mathieu Blanchette and Nadia
El-Mabrouk",
title = "Genetic Map Refinement Using a Comparative Genomic
Approach",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1475--1486",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0094",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0094;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0094",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2009",
}
@Article{Haubold:2009:EMD,
author = "Bernhard Haubold and Peter Pfaffelhuber and Mirjana
Domazet-Los{\=o} and Thomas Wiehe",
title = "Estimating Mutation Distances from Unaligned Genomes",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "10",
pages = "1487--1500",
month = oct,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2009",
}
@Article{Sui:2009:BAD,
author = "Yunxia Sui and Xiaoyue Zhao and Terence P. Speed and
Zhijin Wu",
title = "Background Adjustment for {DNA} Microarrays Using a
Database of Microarray Experiments",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1501--1515",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0063;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0063",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2009",
}
@Article{McCrow:2009:APU,
author = "John P. McCrow",
title = "Alignment of Phylogenetically Unambiguous Indels in
\bioname{Shewanella}",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1517--1528",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2009",
}
@Article{Cheng:2009:PCP,
author = "Yongxi Cheng and Ding-Zhu Du and Ker-I Ko and Guohui
Lin",
title = "On the Parameterized Complexity of Pooling Design",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1529--1537",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0224",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0224;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0224",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Su:2009:CHD,
author = "Ming-Wei Su and Hsiu-Man Lin and Hanna S. Yuan and
Woei-Chyn Chu",
title = "Categorizing Host-Dependent {RNA} Viruses by Principal
Component Analysis of Their Codon Usage Preferences",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1539--1547",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0046",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0046;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0046",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2009",
}
@Article{Huang:2009:FNR,
author = "Fenix W. D. Huang and Wade W. J. Peng and Christian M.
Reidys",
title = "Folding $3$-Noncrossing {RNA} Pseudoknot Structures",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1549--1575",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0194",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0194;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0194",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2009",
}
@Article{Comin:2009:BBF,
author = "Matteo Comin and Concettina Guerra and Frank
Dellaert",
title = "Binding Balls: Fast Detection of Binding Sites Using a
Property of Spherical {Fourier} Transform",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1577--1591",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0045",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0045;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0045",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2009",
}
@Article{Andrecut:2009:PGI,
author = "M. Andrecut",
title = "Parallel {GPU} Implementation of Iterative {PCA}
Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1593--1599",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0221",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0221;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0221",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Kimura:2009:CRS,
author = "Kouichi Kimura and Yutaka Suzuki and Sumio Sugano and
Asako Koike",
title = "Computation of Rank and Select Functions on
Hierarchical Binary String and Its Application to
Genome Mapping Problems for Short-Read {DNA}
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "11",
pages = "1601--1613",
month = nov,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0146",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0146;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0146",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Reinert:2009:AFS,
author = "Gesine Reinert and David Chew and Fengzhu Sun and
Michael S. Waterman",
title = "Alignment-Free Sequence Comparison (I): Statistics and
Power",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1615--1634",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0198",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0198;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0198",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 December 2009",
}
@Article{Pisanti:2009:REN,
author = "Nadia Pisanti and Henry Soldano and Mathilde
Carpentier and Joel Pothier",
title = "A Relational Extension of the Notion of Motifs:
Application to the Common {$3$D} Protein Substructures
Searching Problem",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1635--1660",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0019",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0019;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0019",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2010",
}
@Article{Liu:2009:SPG,
author = "Zhenqiu Liu and Ronald B. Gartenhaus and Xue-Wen Chen
and Charles D. Howell and Ming Tan",
title = "Survival Prediction and Gene Identification with
Penalized Global {AUC} Maximization",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1661--1670",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Hong:2009:APP,
author = "Huixiao Hong and Qilong Hong and Roger Perkins and
Leming Shi and Hong Fang and Zhenqiang Su and Yvonne
Dragan and James C. Fuscoe and Weida Tong",
title = "The Accurate Prediction of Protein Family from Amino
Acid Sequence by Measuring Features of Sequence
Fragments",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1671--1688",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2010",
}
@Article{Chuang:2009:TSB,
author = "Li-Yeh Chuang and Cheng-Huei Yang and Cheng-Hong
Yang",
title = "Tabu Search and Binary Particle Swarm Optimization for
Feature Selection Using Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1689--1703",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0211",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0211;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0211",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2010",
}
@Article{Rodin:2009:UWA,
author = "Andrei S. Rodin and Anatoliy Litvinenko and Kathy Klos
and Alanna C. Morrison and Trevor Woodage and Josef
Coresh and Eric Boerwinkle",
title = "Use of Wrapper Algorithms Coupled with a Random
Forests Classifier for Variable Selection in
Large-Scale Genomic Association Studies",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1705--1718",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0037",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0037;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0037",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2010",
}
@Article{He:2009:URU,
author = "Yi He and Changjun Chen and Yi Xiao",
title = "United-Residue {(UNRES)} {Langevin} Dynamics
Simulations of trpzip2 Folding",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1719--1730",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0070",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0070;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0070",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2010",
}
@Article{Wu:2009:CIA,
author = "Li-Ching Wu and Jorng-Tzong Horng and Yong-An Chen",
title = "A Computation to Integrate the Analysis of Genetic
Variations Occurring within Regulatory Elements and
Their Possible Effects",
journal = j-J-COMPUT-BIOL,
volume = "16",
number = "12",
pages = "1731--1747",
month = dec,
year = "2009",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0247",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0247;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0247",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2010",
}
@Article{Schonhuth:2010:TIA,
author = "Alexander Sch{\"o}nhuth and Raheleh Salari and
Fereydoun Hormozdiari and Artem Cherkasov and S. Cenk
Sahinalp",
title = "Towards Improved Assessment of Functional Similarity
in Large-Scale Screens: a Study on Indel Length",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "1--20",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Liu:2010:EGW,
author = "Lan Liu and Yonghui Wu and Stefano Lonardi and Tao
Jiang",
title = "Efficient Genome-Wide {TagSNP} Selection Across
Populations via the Linkage Disequilibrium Criterion",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "21--37",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2007.0228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2007.0228;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2007.0228",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Samaga:2010:CCI,
author = "Regina Samaga and Axel {Von Kamp} and Steffen Klamt",
title = "Computing Combinatorial Intervention Strategies and
Failure Modes in Signaling Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "39--53",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0121;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0121",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Vacic:2010:GKP,
author = "Vladimir Vacic and Lilia M. Iakoucheva and Stefano
Lonardi and Predrag Radivojac",
title = "Graphlet Kernels for Prediction of Functional Residues
in Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "55--72",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Bandyopadhyay:2010:GMO,
author = "Nirmalya Bandyopadhyay and Tamer Kahveci",
title = "{GBA} Manager: an Online Tool for Querying
Low-Complexity Regions in Proteins",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "73--77",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0006",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0006;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0006",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Mann:2010:IBG,
author = "Scott Mann and Jinyan Li and Yi-Ping Phoebe Chen",
title = "Insights into Bacterial Genome Composition through
Variable Target {GC} Content Profiling",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "79--96",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0058",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0058;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0058",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Jung:2010:PEM,
author = "Juhyun Jung and Taewoo Ryu and Yongdeuk Hwang and
Eunjung Lee and Doheon Lee",
title = "Prediction of Extracellular Matrix Proteins Based on
Distinctive Sequence and Domain Characteristics",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "1",
pages = "97--105",
month = jan,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0236",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0236;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0236",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2010",
}
@Article{Jevremovic:2010:APE,
author = "Dimitrije Jevremovic and Cong T. Trinh and Friedrich
Srienc and Daniel Boley",
title = "On Algebraic Properties of Extreme Pathways in
Metabolic Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "107--119",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0020;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0020",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2010",
}
@Article{Choi:2010:DLM,
author = "Hyungwon Choi and Zhaohui S. Qin and Debashis Ghosh",
title = "A Double-Layered Mixture Model for the Joint Analysis
of {DNA} Copy Number and Gene Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "121--137",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0019",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0019;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0019",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2010",
}
@Article{Nguyen:2010:SWP,
author = "Nha Nguyen and Heng Huang and Soontorn Oraintara and
An Vo",
title = "Stationary Wavelet Packet Transform and Dependent
{Laplacian} Bivariate Shrinkage Estimator for
{Array-CGH} Data Smoothing",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "139--152",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 January 2010",
}
@Article{Karakas:2010:BCL,
author = "Mert Karaka{\c{s}} and Nils Woetzel and Jens Meiler",
title = "{BCL::Contact} --- Low Confidence Fold Recognition
Hits Boost Protein Contact Prediction and {{\em {De}
Novo\/}} Structure Determination",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "153--168",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0030",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0030;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0030",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2009",
}
@Article{Qiu:2010:RCC,
author = "Peng Qiu and Andrew J. Gentles and Sylvia K.
Plevritis",
title = "Reducing the Computational Complexity of Information
Theoretic Approaches for Reconstructing Gene Regulatory
Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "169--176",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 January 2010",
}
@Article{Jiao:2010:EPE,
author = "Shuo Jiao and Shunpu Zhang",
title = "Estimating the Proportion of Equivalently Expressed
Genes in Microarray Data Based on Transformed Test
Statistics",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "177--187",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0060",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0060;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0060",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 January 2010",
}
@Article{Steijaert:2010:CSD,
author = "M. N. Steijaert and J. H. K. {Van Den Brink} and A. M.
L. Liekens and P. A. J. Hilbers and H. M. M. {Ten
Eikelder}",
title = "Computing the Stochastic Dynamics of Phosphorylation
Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "2",
pages = "189--199",
month = feb,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0059",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0059;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0059",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2010",
}
@Article{Anonymous:2010:RMC,
author = "Anonymous",
title = "{RECOMB Main Conference 2009}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "201--201",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.Pr01",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.Pr01",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Shibuya:2010:SPD,
author = "Tetsuo Shibuya",
title = "Searching Protein {$3$-D} Structures in Linear Time",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "203--219",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{He:2010:OBP,
author = "Zengyou He and Chao Yang and Can Yang and Robert Z. Qi
and Jason Po-Ming Tam and Weichuan Yu",
title = "Optimization-Based Peptide Mass Fingerprinting for
Protein Mixture Identification",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "221--235",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0160",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0160;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0160",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Bruckner:2010:TFQ,
author = "Sharon Bruckner and Falk H{\"u}ffner and Richard M.
Karp and Ron Shamir and Roded Sharan",
title = "Topology-Free Querying of Protein Interaction
Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "237--252",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0170;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Lu:2010:CSE,
author = "Yong Lu and Roni Rosenfeld and Gerard J. Nau and Ziv
Bar-Joseph",
title = "Cross Species Expression Analysis of Innate Immune
Response",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "253--268",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Kirkpatrick:2010:HIC,
author = "Bonnie Kirkpatrick and Eran Halperin and Richard M.
Karp",
title = "Haplotype Inference in Complex Pedigrees",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "269--280",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0174;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0174",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Makinen:2010:SRH,
author = "Veli M{\"a}kinen and Gonzalo Navarro and Jouni
Sir{\'e}n and Niko V{\"a}lim{\"a}ki",
title = "Storage and Retrieval of Highly Repetitive Sequence
Collections",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "281--308",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0169",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0169;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0169",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Ramanathan:2010:OAM,
author = "Arvind Ramanathan and Pratul K. Agarwal and Maria
Kurnikova and Christopher J. Langmead",
title = "An Online Approach for Mining Collective Behaviors
from Molecular Dynamics Simulations",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "309--324",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0167",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0167;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0167",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Donze:2010:PSN,
author = "Alexandre Donz{\'e} and Gilles Clermont and
Christopher J. Langmead",
title = "Parameter Synthesis in Nonlinear Dynamical Systems:
Application to Systems Biology",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "325--336",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Pattengale:2010:HMB,
author = "Nicholas D. Pattengale and Masoud Alipour and Olaf R.
P. Bininda-Emonds and Bernard M. E. Moret and
Alexandros Stamatakis",
title = "How Many Bootstrap Replicates Are Necessary?",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "337--354",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0179;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0179",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Stegle:2010:RBT,
author = "Oliver Stegle and Katherine J. Denby and Emma J. Cooke
and David L. Wild and Zoubin Ghahramani and Karsten M.
Borgwardt",
title = "A Robust {Bayesian} Two-Sample Test for Detecting
Intervals of Differential Gene Expression in Microarray
Time Series",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "355--367",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0175",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0175;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0175",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Bashir:2010:OPA,
author = "Ali Bashir and Qing Lu and Dennis Carson and Benjamin
J. Raphael and Yu-Tsueng Liu and Vineet Bafna",
title = "Optimizing {PCR} Assays for {DNA-Based} Cancer
Diagnostics",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "369--381",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0203",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0203;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0203",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Gusfield:2010:MSP,
author = "Dan Gusfield",
title = "The Multi-State Perfect Phylogeny Problem with Missing
and Removable Data: Solutions via Integer-Programming
and Chordal Graph Theory",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "383--399",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0200",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0200;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0200",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Zhang:2010:CGA,
author = "Xiang Zhang and Feng Pan and Yuying Xie and Fei Zou
and Wei Wang",
title = "{COE}: a General Approach for Efficient Genome-Wide
Two-Locus Epistasis Test in Disease Association Study",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "401--415",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Zagordi:2010:DSG,
author = "Osvaldo Zagordi and Lukas Geyrhofer and Volker Roth
and Niko Beerenwinkel",
title = "Deep Sequencing of a Genetically Heterogeneous Sample:
Local Haplotype Reconstruction and Read Error
Correction",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "417--428",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0164",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0164;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0164",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Mohl:2010:LPA,
author = "Mathias M{\"o}hl and Sebastian Will and Rolf
Backofen",
title = "Lifting Prediction to Alignment of {RNA} Pseudoknots",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "429--442",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0168",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0168;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0168",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Lavallee-Adam:2010:DLR,
author = "Mathieu Lavall{\'e}e-Adam and Benoit Coulombe and
Mathieu Blanchette",
title = "Detection of Locally Over-Represented {GO} Terms in
Protein-Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "443--457",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Zheng:2010:PFS,
author = "Wei Zheng and Karl E. Griswold and Chris
Bailey-Kellogg",
title = "Protein Fragment Swapping: a Method for Asymmetric,
Selective Site-Directed Recombination",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "459--475",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Hescott:2010:EBP,
author = "B. J. Hescott and M. D. M. Leiserson and L. J. Cowen
and D. K. Slonim",
title = "Evaluating Between-Pathway Models with Expression
Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "477--487",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Swenson:2010:SSP,
author = "Krister M. Swenson and Vaibhav Rajan and Yu Lin and
Bernard M. E. Moret",
title = "Sorting Signed Permutations by Inversions in {$ O(n
\log n) $} Time",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "489--501",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0184",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0184;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0184",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Navlakha:2010:FBA,
author = "Saket Navlakha and James White and Niranjan Nagarajan
and Mihai Pop and Carl Kingsford",
title = "Finding Biologically Accurate Clusterings in
Hierarchical Tree Decompositions Using the Variation of
Information",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "503--516",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Sindi:2010:IFE,
author = "Suzanne S. Sindi and Benjamin J. Raphael",
title = "Identification and Frequency Estimation of Inversion
Polymorphisms from Haplotype Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "517--531",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Kang:2010:DPA,
author = "Eun Yong Kang and Chun Ye and Ilya Shpitser and
Eleazar Eskin",
title = "Detecting the Presence and Absence of Causal
Relationships between Expression of Yeast Genes with
Very Few Samples",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "533--546",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0176",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0176;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0176",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Kang:2010:EAM,
author = "Hyun Min Kang and Noah A. Zaitlen and Eleazar Eskin",
title = "{EMINIM}: an Adaptive and Memory-Efficient Algorithm
for Genotype Imputation",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "547--560",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Kececioglu:2010:APS,
author = "John Kececioglu and Eagu Kim and Travis Wheeler",
title = "Aligning Protein Sequences with Predicted Secondary
Structure",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "3",
pages = "561--580",
month = mar,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0222",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0222;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0222",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2010",
}
@Article{Zhai:2010:PDE,
author = "Zhiyuan Zhai and Shih-Yen Ku and Yihui Luan and Gesine
Reinert and Michael S. Waterman and Fengzhu Sun",
title = "The Power of Detecting Enriched Patterns: an {HMM}
Approach",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "4",
pages = "581--592",
month = apr,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0218",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0218;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0218",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2010",
}
@Article{Shibuya:2010:SPT,
author = "Tetsuo Shibuya",
title = "Searching Protein Three-Dimensional Structures in
Faster Than Linear Time",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "4",
pages = "593--602",
month = apr,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0217;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2010",
}
@Article{Shi:2010:PAE,
author = "Haixiang Shi and Bertil Schmidt and Weiguo Liu and
Wolfgang M{\"u}ller-Wittig",
title = "A Parallel Algorithm for Error Correction in
High-Throughput Short-Read Data on {CUDA-Enabled}
Graphics Hardware",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "4",
pages = "603--615",
month = apr,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0062",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0062;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0062",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2010",
}
@Article{Boden:2010:BNM,
author = "Mikael Bod{\'e}n and Graham Dellaire and Kevin Burrage
and Timothy L. Bailey",
title = "A {Bayesian} Network Model of Proteins' Association
with Promyelocytic Leukemia {(PML)} Nuclear Bodies",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "4",
pages = "617--630",
month = apr,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0140",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0140;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0140",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2010",
}
@Article{Wu:2010:KSA,
author = "Gang Wu and Ying Zhang and Yimin Wei",
title = "{Krylov} Subspace Algorithms for Computing {GeneRank}
for the Analysis of Microarray Data Mining",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "4",
pages = "631--646",
month = apr,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/pagerank.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2010",
}
@Article{Ahn:2010:FUB,
author = "Namsu Ahn and Sungsoo Park",
title = "Finding an Upper Bound for the Number of Contacts in
Hydrophobic-Hydrophilic Protein Structure Prediction
Model",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "4",
pages = "647--656",
month = apr,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0009",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0009;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0009",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2010",
}
@Article{Yang:2010:IGC,
author = "Qingwu Yang and Gangman Yi and Fenghui Zhang and
Michael R. Thon and Sing-Hoi Sze",
title = "Identifying Gene Clusters within Localized Regions in
Multiple Genomes",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "657--668",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Hormozdiari:2010:PPI,
author = "Fereydoun Hormozdiari and Raheleh Salari and Vineet
Bafna and S. Cenk Sahinalp",
title = "Protein-Protein Interaction Network Evaluation for
Identifying Potential Drug Targets",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "669--684",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0032;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0032",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Huang:2010:SRG,
author = "Yen-Lin Huang and Chin Lung Lu",
title = "Sorting by Reversals, Generalized Transpositions, and
Translocations Using Permutation Groups",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "685--705",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Cardone:2010:EIC,
author = "Antonio Cardone and R. Wayne Albers and Ram D. Sriram
and Harish C. Pant",
title = "Evaluation of the Interaction of Cyclin-Dependent
Kinase 5 with Activator p25 and with p25-Derived
Inhibitor {CIP}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "707--721",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0202",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0202;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0202",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Berge:2010:MFM,
author = "Claude Berge and Nicolas Froloff and Ravi Kiran Reddy
Kalathur and Myriam Maumy and Olivier Poch and Wolfgang
Raffelsberger and Nicolas Wicker",
title = "Multidimensional Fitting for Multivariate Data
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "723--732",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2010",
}
@Article{Ma:2010:DIM,
author = "Patrick C. H. Ma and Keith C. C. Chan",
title = "Discovering Interesting Motif-Sets for Multi-Class
Protein Sequence Classification",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "733--743",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0213",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0213;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0213",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Chung:2010:NRM,
author = "Myung-Hoon Chung and Chul Koo Kim",
title = "Non-Random Mating Involving Inheritance of Social
Status",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "745--754",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0152;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Molineris:2010:NAI,
author = "Ivan Molineris and Gabriele Sales and Federico Bianchi
and Ferdinando {Di Cunto} and Michele Caselle",
title = "A New Approach for the Identification of Processed
Pseudogenes",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "5",
pages = "755--765",
month = may,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0027",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0027;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0027",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Lam:2010:IAR,
author = "Fumei Lam and Ryan Tarpine and Sorin Istrail",
title = "The Imperfect Ancestral Recombination Graph
Reconstruction Problem: Upper Bounds for Recombination
and Homoplasy",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "767--781",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 June 2010",
}
@Article{Zhao:2010:PCM,
author = "Feng Zhao and Jian Peng and Joe Debartolo and Karl F.
Freed and Tobin R. Sosnick and Jinbo Xu",
title = "A Probabilistic and Continuous Model of Protein
Conformational Space for Template-Free Modeling",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "783--798",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0235",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0235;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0235",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 June 2010",
}
@Article{Matsen:2010:CAR,
author = "Frederick A. Matsen",
title = "{constNJ}: an Algorithm to Reconstruct Sets of
Phylogenetic Trees Satisfying Pairwise Topological
Constraints",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "799--818",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0201;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0201",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Aspnas:2010:COS,
author = "Mats Aspn{\"a}s and Kimmo Mattila and Kristoffer
Osowski and Jan Westerholm",
title = "Code Optimization of the Subroutine to Remove Near
Identical Matches in the Sequence Database Homology
Search Tool {PSI-BLAST}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "819--823",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0053",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0053;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0053",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 June 2010",
}
@Article{Jow:2010:IGM,
author = "Howsun Jow and Madhuchhanda Bhattacharjee and Richard
Boys and Darren Wilkinson",
title = "The Integration of Genetic Maps Using {Bayesian}
Inference",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "825--840",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 June 2010",
}
@Article{Manuch:2010:TLB,
author = "J{\'a}n Ma{\v{n}}uch and Ladislav Stacho and Christine
Stoll",
title = "Two Lower Bounds for Self-Assemblies at Temperature
1",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "841--852",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0067",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0067;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0067",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2010",
}
@Article{Dimitrova:2010:DTS,
author = "Elena S. Dimitrova and M. Paola Vera Licona and John
McGee and Reinhard Laubenbacher",
title = "Discretization of Time Series Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "6",
pages = "853--868",
month = jun,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 June 2010",
}
@Article{LopezGarciaDeLomana:2010:SAG,
author = "Adri{\'a}n {L{\'o}pez Garc{\'\i}a De Lomana} and Qasim
K. Beg and G. {De Fabritiis} and Jordi
Vill{\`a}-Freixa",
title = "Statistical Analysis of Global Connectivity and
Activity Distributions in Cellular Networks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "869--878",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0240",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0240;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0240",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2010",
}
@Article{Huang:2010:SIS,
author = "Shuguang Huang",
title = "Statistical Issues in Subpopulation Analysis of High
Content Imaging Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "879--894",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0071",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0071;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0071",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2010",
}
@Article{James:2010:MAG,
author = "Scott C. James and Varun Boriah",
title = "Modeling Algae Growth in an Open-Channel Raceway",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "895--906",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2010",
}
@Article{Wang:2010:TMS,
author = "Lusheng Wang and Binhai Zhu",
title = "On the Tractability of Maximal Strip Recovery",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "907--914",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2010",
}
@Article{Jiang:2010:PRS,
author = "Minghui Jiang and Pedro J. Tejada and Ramoni O. Lasisi
and Shanhong Cheng and D. Scott Fechser",
title = "{$K$}-Partite {RNA} Secondary Structures",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "915--925",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0119",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0119;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0119",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2010",
}
@Article{Chang:2010:ICP,
author = "Huilan Chang and Hong-Bin Chen and Hung-Lin Fu",
title = "Identification and Classification Problems on Pooling
Designs for Inhibitor Models",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "927--941",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0138",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0138;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0138",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2010",
}
@Article{Betancourt:2010:CBM,
author = "Marcos R. Betancourt",
title = "Comparison between Molecular Dynamic Based and
Knowledge Based Potentials for Protein Side Chains",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "7",
pages = "943--952",
month = jul,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0152;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2010",
}
@Article{Szczurek:2010:IKD,
author = "Ewa Szczurek and Przemys{\l}aw Biecek and Jerzy Tiuryn
and Martin Vingron",
title = "Introducing Knowledge into Differential Expression
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "953--967",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0034",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0034;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0034",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 August 2010",
}
@Article{Graca:2010:HIP,
author = "Ana Gra{\c{c}}a and In{\^e}s Lynce and Jo{\~a}o
Marques-Silva and Arlindo L. Oliveira",
title = "Haplotype Inference by Pure Parsimony: a Survey",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "969--992",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 August 2010",
}
@Article{Minary:2010:CON,
author = "Peter Minary and Michael Levitt",
title = "Conformational Optimization with Natural Degrees of
Freedom: a Novel Stochastic Chain Closure Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "993--1010",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0016",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0016;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0016",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 August 2010",
}
@Article{Apostolico:2010:SCP,
author = "Alberto Apostolico and Fabio Cunial",
title = "The Subsequence Composition of Polypeptides",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "1011--1049",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2010",
}
@Article{Ziv-Ukelson:2010:FAS,
author = "Michal Ziv-Ukelson and Irit Gat-Viks and Ydo Wexler
and Ron Shamir",
title = "A Faster Algorithm for Simultaneous Alignment and
Folding of {RNA}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "1051--1065",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 July 2010",
}
@Article{Kim:2010:WBF,
author = "Bong-Rae Kim and Timothy McMurry and Wei Zhao and
Rongling Wu and Arthur Berg",
title = "Wavelet-Based Functional Clustering for Patterns of
High-Dimensional Dynamic Gene Expression",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "1067--1080",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0270",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0270;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0270",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 August 2010",
}
@Article{Pang:2010:MMP,
author = "Xiaodong Pang and Linxiang Zhou and Mingjun Zhang and
Fang Xie and Long Yu and Lili Zhang and Lina Xu and
Xinyi Zhang",
title = "A Mathematical Model for Peptide Inhibitor Design",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "8",
pages = "1081--1093",
month = aug,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0272",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:49:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0272;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0272",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 August 2010",
}
@Article{Anonymous:2010:P,
author = "Anonymous",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1095--1096",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.004p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.004p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Chauve:2010:YAG,
author = "Cedric Chauve and Haris Gavranovic and Aida Ouangraoua
and Eric Tannier",
title = "Yeast Ancestral Genome Reconstructions: The
Possibilities of Computational Methods {II}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1097--1112",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Yang:2010:NPV,
author = "Zhenyu Yang and David Sankoff",
title = "Natural Parameter Values for Generalized Gene
Adjacency",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1113--1128",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0099",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0099;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0099",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Ouangraoua:2010:CSG,
author = "A{\"\i}da Ouangraoua and Anne Bergeron",
title = "Combinatorial Structure of Genome Rearrangements
Scenarios",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1129--1144",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Braga:2010:SSS,
author = "Mar{\'\i}lia D. V. Braga and Jens Stoye",
title = "The Solution Space of Sorting by {DCJ}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1145--1165",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0109",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0109;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0109",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Chauve:2010:MCS,
author = "Cedric Chauve and Utz-Uwe Haus and Tamon Stephen and
Vivija P. You",
title = "Minimal Conflicting Sets for the Consecutive Ones
Property in Ancestral Genome Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1167--1181",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Blin:2010:FNC,
author = "Guillaume Blin and David Faye and Jens Stoye",
title = "Finding Nested Common Intervals Efficiently",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1183--1194",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0089",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0089;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0089",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Xu:2010:MPL,
author = "Andrew Wei Xu",
title = "The Median Problems on Linear Multichromosomal
Genomes: Graph Representation and Fast Exact
Solutions",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1195--1211",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Bergeron:2010:RMS,
author = "Anne Bergeron and Paul Medvedev and Jens Stoye",
title = "Rearrangement Models and Single-Cut Operations",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1213--1225",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0091;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0091",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Song:2010:CCA,
author = "Giltae Song and Louxin Zhang and Tomas Vinar and Webb
Miller",
title = "{CAGE}: Combinatorial Analysis of Gene-Cluster
Evolution",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1227--1242",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0094",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0094;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0094",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Delgado:2010:CSA,
author = "Jo{\~a}o Delgado and In{\^e}s Lynce and Vasco
Manquinho",
title = "Computing the Summed Adjacency Disruption Number
between Two Genomes with Duplicate Genes",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1243--1265",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Vinar:2010:RHC,
author = "Tom{\'a}{\v{s}} Vina{\v{r}} and Bro{\v{n}}a
Brejov{\'a} and Giltae Song and Adam Siepel",
title = "Reconstructing Histories of Complex Gene Clusters on a
Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1267--1279",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Hsu:2010:EMD,
author = "Chih-Hao Hsu and Yu Zhang and Ross C. Hardison and
Eric D. Green and Webb Miller",
title = "An Effective Method for Detecting Gene Conversion
Events in Whole Genomes",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1281--1297",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Adam:2010:SFC,
author = "Zaky Adam and David Sankoff",
title = "A Statistically Fair Comparison of Ancestral Genome
Reconstructions, Based on Breakpoint and Rearrangement
Distances",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1299--1314",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0121;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0121",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Belcaid:2010:MGC,
author = "Mahdi Belcaid and Anne Bergeron and Guylaine Poisson",
title = "{Mosaic} Graphs and Comparative Genomics in Phage
Communities",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1315--1326",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Tuller:2010:RAG,
author = "Tamir Tuller and Hadas Birin and Martin Kupiec and
Eytan Ruppin",
title = "Reconstructing Ancestral Genomic Sequences by
Co-Evolution: Formal Definitions, Computational Issues,
and Biological Examples",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "9",
pages = "1327--1344",
month = sep,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0112",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:01 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0112;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0112",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2010",
}
@Article{Parida:2010:ARG,
author = "Laxmi Parida",
title = "Ancestral Recombinations Graph: a Reconstructability
Perspective Using Random-Graphs Framework",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1345--1370",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2010",
}
@Article{Grainger:2010:RER,
author = "Ben Grainger and Michael I. Sadowski and William R.
Taylor",
title = "Re-Evaluating the ``Rules'' of Protein Topology",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1371--1384",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0265;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0265",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 July 2010",
}
@Article{Wu:2010:SQN,
author = "Zhijin Wu and Martin J. Aryee",
title = "Subset Quantile Normalization Using Negative Control
Features",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1385--1395",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0049",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0049;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0049",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2010",
}
@Article{Giladi:2010:ETI,
author = "Eldar Giladi and John Healy and Gene Myers and Chris
Hart and Philipp Kapranov and Doron Lipson and Steve
Roels and Edward Thayer and Stan Letovsky",
title = "Error Tolerant Indexing and Alignment of Short Reads
with Covering Template Families",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1397--1411",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2010",
}
@Article{Li:2010:EEC,
author = "Zengti Li and Suogang Gao and Hongjie Du and Feng Zou
and Weili Wu",
title = "Efficient Error-Correcting Pooling Designs Constructed
from Pseudo-Symplectic Spaces Over a Finite Field",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1413--1423",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0206",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0206;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0206",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 July 2010",
}
@Article{Zhang:2010:MIS,
author = "Haiying Zhang and Bing Zhou",
title = "On the Maximal Interval Subgraph of a Tree",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1425--1433",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0039",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0039;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0039",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2010",
}
@Article{Gupta:2010:HIG,
author = "Arvind Gupta and Mohammad M. Karimi and J{\'a}n
Ma{\v{n}}uch and Ladislav Stacho and Xiaohong Zhao",
title = "Haplotype Inferring via Galled-Tree Networks Is
{NP-Complete}",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1435--1449",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2010",
}
@Article{Doan:2010:NLT,
author = "Duong D. Doan and Patricia A. Evans and Joseph D.
Horton",
title = "A Near-Linear Time Algorithm for Haplotype
Determination on General Pedigrees",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "10",
pages = "1451--1465",
month = oct,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2010",
}
@Article{Wan:2010:AFS,
author = "Lin Wan and Gesine Reinert and Fengzhu Sun and Michael
S. Waterman",
title = "Alignment-Free Sequence Comparison {(II)}: Theoretical
Power of Comparison Statistics",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1467--1490",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0056;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0056",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2010",
}
@Article{Sakhanenko:2010:MLN,
author = "Nikita A. Sakhanenko and David J. Galas",
title = "{Markov} Logic Networks in the Analysis of Genetic
Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1491--1508",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0044",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0044;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0044",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2010",
}
@Article{Gronau:2010:ADM,
author = "Ilan Gronau and Shlomo Moran and Irad Yavneh",
title = "Adaptive Distance Measures for Resolving {K2P}
Quartets: Metric Separation versus Stochastic Noise",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1509--1518",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0236",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0236;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0236",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2010",
}
@Article{Boisvert:2010:RSA,
author = "S{\'e}bastien Boisvert and Fran{\c{c}}ois Laviolette
and Jacques Corbeil",
title = "{Ray}: Simultaneous Assembly of Reads from a Mix of
High-Throughput Sequencing Technologies",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1519--1533",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0238",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0238;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0238",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2010",
}
@Article{Snir:2010:NTD,
author = "Sagi Snir and Edward Trifonov",
title = "A Novel Technique for Detecting Putative Horizontal
Gene Transfer in the Sequence Space",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1535--1548",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2010",
}
@Article{Zhao:2010:EEE,
author = "Xiaohong Zhao and Lance E. Palmer and Randall Bolanos
and Cristian Mircean and Dan Fasulo and Gayle M.
Wittenberg",
title = "{EDAR}: an Efficient Error Detection and Removal
Algorithm for Next Generation Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1549--1560",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0127",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0127;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0127",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2010",
}
@Article{Chen:2010:CCG,
author = "Xin Chen and Jian-Yi Yang",
title = "Constructing Consensus Genetic Maps in Comparative
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1561--1573",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0268",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0268;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0268",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2010",
}
@Article{Reidys:2010:SRP,
author = "Christian M. Reidys and Rita R. Wang",
title = "Shapes of {RNA} Pseudoknot Structures",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "11",
pages = "1575--1590",
month = nov,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0006",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0006;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0006",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 September 2010",
}
@Article{Behrens:2010:SEP,
author = "Sarah Behrens and Martin Vingron",
title = "Studying the Evolution of Promoter Sequences: a
Waiting Time Problem",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1591--1606",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Ye:2010:CAD,
author = "Xugang Ye and Yi-Kuo Yu and Stephen F. Altschul",
title = "Compositional Adjustment of {Dirichlet} Mixture
Priors",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1607--1620",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Zhou:2010:WMF,
author = "Qing Zhou",
title = "On Weight Matrix and Free Energy Models for Sequence
Motif Detection",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1621--1638",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0142",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0142;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0142",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Herant:2010:CTD,
author = "Marc Herant and Micah Dembo",
title = "{Cytopede}: a Three-Dimensional Tool for Modeling Cell
Motility on a Flat Surface",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1639--1677",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0271",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0271;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0271",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 October 2010",
}
@Article{Liu:2010:SMR,
author = "Xin Liu and Ya-Pu Zhao",
title = "Substitution Matrices of Residue Triplets Derived from
Protein Blocks",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1679--1687",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0035",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0035;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0035",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Zhang:2010:PIV,
author = "Xinan Zhang and Yingdong Zhao and Avidan U. Neumann",
title = "Partial Immunity and Vaccination for Influenza",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1689--1696",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Chan:2010:ISW,
author = "Hock Peng Chan and Nancy Ruonan Zhang and Louis H. Y.
Chen",
title = "Importance Sampling of Word Patterns in {DNA} and
Protein Sequences",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1697--1709",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0233",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0233;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0233",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Luaces:2010:EGB,
author = "Oscar Luaces and Jos{\'e} R. Quevedo and Miguel
P{\'e}rez-Enciso and Jorge D{\'\i}ez and Juan Jos{\'e}
{Del Coz} and Antonio Bahamonde",
title = "Explaining the Genetic Basis of Complex Quantitative
Traits through Prediction Models",
journal = j-J-COMPUT-BIOL,
volume = "17",
number = "12",
pages = "1711--1723",
month = dec,
year = "2010",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2010",
}
@Article{Than:2011:CPS,
author = "Cuong V. Than and Noah A. Rosenberg",
title = "Consistency Properties of Species Tree Inference by
Minimizing Deep Coalescences",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "1--15",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Day:2011:RPG,
author = "Ryan Day and Xiaotao Qu and Rosemarie Swanson and Zach
Bohannan and Robert Bliss and Jerry Tsai",
title = "Relative Packing Groups in Template-Based Structure
Prediction: Cooperative Effects of True Positive
Constraints",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "17--26",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Andonov:2011:MCM,
author = "Rumen Andonov and No{\"e}l Malod-Dognin and Nicola
Yanev",
title = "Maximum Contact Map Overlap Revisited",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "27--41",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0196",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0196;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0196",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Heinonen:2011:CAM,
author = "Markus Heinonen and Sampsa Lappalainen and Taneli
Mielik{\"a}inen and Juho Rousu",
title = "Computing Atom Mappings for Biochemical Reactions
without Subgraph Isomorphism",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "43--58",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0216",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0216;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0216",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Ovadia:2011:CRP,
author = "Y. Ovadia and D. Fielder and C. Conow and R.
Libeskind-Hadas",
title = "The Cophylogeny Reconstruction Problem Is
{NP-Complete}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "59--65",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0240",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0240;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0240",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2010",
}
@Article{Weng:2011:MPS,
author = "J. F. Weng and D. A. Thomas and I. Mareels",
title = "Maximum Parsimony, Substitution Model, and Probability
Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "67--80",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0232;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 July 2010",
}
@Article{Marras:2011:MLP,
author = "Elisabetta Marras and Antonella Travaglione and Enrico
Capobianco",
title = "Manifold Learning in Protein Interactomes",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "81--96",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 July 2010",
}
@Article{Wong:2011:SAR,
author = "Thomas K. F. Wong and T. W. Lam and Wing-Kin Sung and
Brenda W. Y. Cheung and S. M. Yiu",
title = "Structural Alignment of {RNA} with Complex Pseudoknot
Structure",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "97--108",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0275;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0275",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Jenkins:2011:ISD,
author = "Paul A. Jenkins and Robert C. Griffiths",
title = "Inference from Samples of {DNA} Sequences Using a
Two-Locus Model",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "109--127",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0231",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0231;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0231",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Anonymous:2011:C,
author = "Anonymous",
title = "Correction",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "1",
pages = "129--129",
month = jan,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.cor1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.cor1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Kellis:2011:P,
author = "Manolis Kellis and Andrea Califano and Ziv
Bar-Joseph",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "131--131",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.005p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.005p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Perlman:2011:CDG,
author = "Liat Perlman and Assaf Gottlieb and Nir Atias and
Eytan Ruppin and Roded Sharan",
title = "Combining Drug and Gene Similarity Measures for
Drug-Target Elucidation",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "133--145",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0213",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0213;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0213",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Bandaru:2011:MCI,
author = "Pradeep Bandaru and Mukesh Bansal and Ilya Nemenman",
title = "Mass Conservation and Inference of Metabolic Networks
from High-Throughput Mass Spectrometry Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "147--154",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0222",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0222;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0222",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Ng:2011:ACS,
author = "Patrick Ng and Uri Keich",
title = "Alignment Constrained Sampling",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "155--168",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0220",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0220;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0220",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Quo:2011:ACM,
author = "Chang F. Quo and Richard A. Moffitt and Alfred H.
{Merrill, Jr.} and May D. Wang",
title = "Adaptive Control Model Reveals Systematic Feedback and
Key Molecules in Metabolic Pathway Regulation",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "169--182",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0215;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Corradin:2011:SAR,
author = "Alberto Corradin and Barbara {Di Camillo} and Vincenzo
Ciminale and Gianna Toffolo and Claudio Cobelli",
title = "Sensitivity Analysis of Retrovirus {HTLV-1}
Transactivation",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "183--193",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Polynikis:2011:DCV,
author = "Athanasios Polynikis and Giulia Cuccato and Stefania
Criscuolo and Stephen J. Hogan and Mario {Di Bernardo}
and Diego {Di Bernardo}",
title = "Design and Construction of a Versatile Synthetic
Network for Bistable Gene Expression in Mammalian
Systems",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "2",
pages = "195--203",
month = feb,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0208",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0208;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0208",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2011",
}
@Article{Berger:2011:PIC,
author = "Bonnie Berger",
title = "Preface: {14$^{th}$ International Conference on
Research in Computational Molecular Biology (RECOMB
2010)}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "205--205",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.006p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.006p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Atias:2011:AFP,
author = "Nir Atias and Roded Sharan",
title = "An Algorithmic Framework for Predicting Side Effects
of Drugs",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "207--218",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0255",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0255;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0255",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Ay:2011:SAM,
author = "Ferhat Ay and Manolis Kellis and Tamer Kahveci",
title = "{SubMAP}: Aligning Metabolic Pathways with Subnetwork
Mappings",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "219--235",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0280",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0280;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0280",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Bercovici:2011:AAA,
author = "Sivan Bercovici and Dan Geiger",
title = "Admixture Aberration Analysis: Application to Mapping
in Admixed Population Using Pooled {DNA}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "237--249",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0250",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0250;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0250",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Caldas:2011:HGB,
author = "Jos{\'e} Caldas and Samuel Kaski",
title = "Hierarchical Generative Biclustering for {MicroRNA}
Expression Analysis",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "251--261",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0256",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0256;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0256",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Chowdhury:2011:SSF,
author = "Salim A. Chowdhury and Rod K. Nibbe and Mark R. Chance
and Mehmet Koyut{\"u}rk",
title = "Subnetwork State Functions Define Dysregulated
Subnetworks in Cancer",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "263--281",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0269;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0269",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Claassen:2011:PCP,
author = "Manfred Claassen and Ruedi Aebersold and Joachim M.
Buhmann",
title = "Proteome Coverage Prediction for Integrated Proteomics
Datasets",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "283--293",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0261;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0261",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Danford:2011:DRO,
author = "Timothy Danford and Robin Dowell and Sudeep Agarwala
and Paula Grisafi and Gerald Fink and David Gifford",
title = "Discovering Regulatory Overlapping {RNA} Transcripts",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "295--303",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0267",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0267;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0267",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Feng:2011:IIS,
author = "Jianxing Feng and Wei Li and Tao Jiang",
title = "Inference of Isoforms from Short Sequence Reads",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "305--321",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Halldorsson:2011:CPS,
author = "Bjarni V. Halld{\'o}rsson and Derek Aguiar and Ryan
Tarpine and Sorin Istrail",
title = "The {Clark} Phaseable Sample Size Problem: Long-Range
Phasing and Loss of Heterozygosity in {GWAS}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "323--333",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0288",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0288;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0288",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Hirsch:2011:BDA,
author = "Michael Hirsch and Bernhard Sch{\"o}lkopf and Michael
Habeck",
title = "A Blind Deconvolution Approach for Improving the
Resolution of {Cryo-EM} Density Maps",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "335--346",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0264",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0264;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0264",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Jang:2011:TFA,
author = "Richard Jang and Xin Gao and Ming Li",
title = "Towards Fully Automated Structure-Based {NMR}
Resonance Assignment of {$^{15}$N}-Labeled Proteins
From Automatically Picked Peaks",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "347--363",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0251;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0251",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Kao:2011:NEM,
author = "Wei-Chun Kao and Yun S. Song",
title = "{naiveBayesCall}: an Efficient Model-Based
Base-Calling Algorithm for High-Throughput Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "365--377",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0247",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0247;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0247",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Kelley:2011:EBP,
author = "David R. Kelley and Carl Kingsford",
title = "Extracting Between-Pathway Models from {E-MAP}
Interactions Using Expected Graph Compression",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "379--390",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0268",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0268;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0268",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Kowalczyk:2011:PMT,
author = "Adam Kowalczyk and Justin Bedo and Thomas Conway and
Bryan Beresford-Smith",
title = "The {Poisson} Margin Test for Normalization-Free
Significance Analysis of {NGS} Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "391--400",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0272",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0272;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0272",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Kozanitis:2011:CGS,
author = "Christos Kozanitis and Chris Saunders and Semyon
Kruglyak and Vineet Bafna and George Varghese",
title = "Compressing Genomic Sequence Fragments Using
{SlimGene}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "401--413",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Lam:2011:GAD,
author = "Fumei Lam and Charles H. Langley and Yun S. Song",
title = "On the Genealogy of Asexual Diploids",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "415--428",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0270",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0270;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0270",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Laserson:2011:GNA,
author = "Jonathan Laserson and Vladimir Jojic and Daphne
Koller",
title = "{Genovo}: {{\em {De} Novo\/}} Assembly for
Metagenomes",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "429--443",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Misra:2011:GBP,
author = "Navodit Misra and Guy Blelloch and R. Ravi and Russell
Schwartz",
title = "Generalized {Buneman} Pruning for Inferring the Most
Parsimonious Multi-State Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "445--457",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0254",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0254;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0254",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Pasaniuc:2011:AEE,
author = "Bogdan Pa{\c{s}}aniuc and Noah Zaitlen and Eran
Halperin",
title = "Accurate Estimation of Expression Levels of Homologous
Genes in {RNA-seq} Experiments",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "459--468",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0259",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0259;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0259",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Paten:2011:CGG,
author = "Benedict Paten and Mark Diekhans and Dent Earl and
John {St.John} and Jian Ma and Bernard Suh and David
Haussler",
title = "Cactus Graphs for Genome Comparisons",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "469--481",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0252",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0252;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0252",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Setty:2011:HTI,
author = "Manu N. Setty and Alexander Gusev and Itsik Pe'er",
title = "{HLA} Type Inference via Haplotypes Identical by
Descent",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "483--493",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Sharon:2011:PBF,
author = "Itai Sharon and Sivan Bercovici and Ron Y. Pinter and
Tomer Shlomi",
title = "Pathway-Based Functional Analysis of Metagenomes",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "495--505",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0260",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0260;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0260",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Vandin:2011:ADS,
author = "Fabio Vandin and Eli Upfal and Benjamin J. Raphael",
title = "Algorithms for Detecting Significantly Mutated
Pathways in Cancer",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "507--522",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0265;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0265",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Wu:2011:NAB,
author = "Yu-Wei Wu and Yuzhen Ye",
title = "A Novel Abundance-Based Algorithm for Binning
Metagenomic Sequences Using $l$-tuples",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "3",
pages = "523--534",
month = mar,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0245",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0245;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0245",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2011",
}
@Article{Grossi:2011:MSM,
author = "Roberto Grossi and Andrea Pietracaprina and Nadia
Pisanti and Geppino Pucci and Eli Upfal and Fabio
Vandin",
title = "{MADMX}: a Strategy for Maximal Dense Motif
Extraction",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "535--545",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0177",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0177;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0177",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2011",
}
@Article{Noy:2011:SBF,
author = "Karin Noy and Fadi Towfic and Gayle M. Wittenberg and
Daniel Fasulo",
title = "Shape-Based Feature Matching Improves Protein
Identification via {LC-MS} and Tandem {MS}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "547--557",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2011",
}
@Article{Graudenzi:2011:RAB,
author = "A. Graudenzi and R. Serra and M. Villani and A.
Colacci and S. A. Kauffman",
title = "Robustness Analysis of a {Boolean} Model of Gene
Regulatory Network with Memory",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "559--577",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0224",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0224;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0224",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2011",
}
@Article{Grusea:2011:CPA,
author = "S. Grusea and E. Pardoux and O. Chabrol and P.
Pontarotti",
title = "Compound {Poisson} Approximation and Testing for Gene
Clusters with Multigene Families",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "579--594",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0043",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0043;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0043",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2011",
}
@Article{Fionda:2011:BNQ,
author = "Valeria Fionda and Luigi Palopoli",
title = "Biological Network Querying Techniques: Analysis and
Comparison",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "595--625",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2011",
}
@Article{Zhang:2011:PIB,
author = "Shu-Bo Zhang and Song-Yu Zhou and Jian-Guo He and
Jian-Huang Lai",
title = "Phylogeny Inference Based on Spectral Graph
Clustering",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "627--637",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0028",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0028;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0028",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 February 2011",
}
@Article{Marhon:2011:GPB,
author = "Sajid A. Marhon and Stefan C. Kremer",
title = "Gene Prediction Based on {DNA} Spectral Analysis: a
Literature Review",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "4",
pages = "639--676",
month = apr,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0184",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:18 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0184;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0184",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 March 2011",
}
@Article{Meng:2011:SAH,
author = "Lu Meng and Fengzhu Sun and Xuegong Zhang and Michael
S. Waterman",
title = "Sequence Alignment as Hypothesis Testing",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "677--691",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0328",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0328;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0328",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2011",
}
@Article{Li:2011:FNO,
author = "Shuai Cheng Li and Dongbo Bu and Jinbo Xu and Ming
Li",
title = "Finding Nearly Optimal {GDT} Scores",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "693--704",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0123",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0123;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0123",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2011",
}
@Article{Belal:2011:TMW,
author = "Nahla A. Belal and Lenwood S. Heath",
title = "A Theoretical Model for Whole Genome Alignment",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "705--728",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Wieringen:2011:EFA,
author = "Wessel N. Van Wieringen and Mark A. {Van De Wiel}",
title = "Exploratory Factor Analysis of Pathway Copy Number
Data with an Application Towards the Integration with
Gene Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "729--741",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2011",
}
@Article{Kannan:2011:PTA,
author = "Lavanya Kannan and Hua Li and Arcady Mushegian",
title = "A Polynomial-Time Algorithm Computing Lower and Upper
Bounds of the Rooted Subtree Prune and Regraft
Distance",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "743--757",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0045",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0045;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0045",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 December 2010",
}
@Article{Zhao:2011:MFD,
author = "Xiaoyan Zhao and Sing-Hoi Sze",
title = "Motif Finding in {DNA} Sequences Based on Skipping
Nonconserved Positions in Background {Markov} Chains",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "759--770",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2011",
}
@Article{Kucherov:2011:RLC,
author = "Gregory Kucherov and Tamar Pinhas and Michal
Ziv-Ukelson",
title = "Regular Language Constrained Sequence Alignment
Revisited",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "5",
pages = "771--781",
month = may,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0291",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0291;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0291",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2011",
}
@Article{Veliz-Cuba:2011:BMC,
author = "Alan Veliz-Cuba and Brandilyn Stigler",
title = "{Boolean} Models Can Explain Bistability in the
\bioname{lac} Operon",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "783--794",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Souaiaia:2011:CSC,
author = "Tade Souaiaia and Zach Frazier and Ting Chen",
title = "{ComB}: {SNP} Calling and Mapping Analysis for Color
and Nucleotide Space Platforms",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "795--807",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0027",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0027;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0027",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Dojer:2011:BBS,
author = "Norbert Dojer and Przemys{\l}aw Biecek and Jerzy
Tiuryn",
title = "{Bi}-Billboard: Symmetrization and Careful Choice of
Informant Species Results in Higher Accuracy of
Regulatory Element Prediction",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "809--819",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0299",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0299;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0299",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Blazewicz:2011:RPD,
author = "Jacek Blazewicz and Marek Figlerowicz and Marta
Kasprzak and Martyna Nowacka and Agnieszka Rybarczyk",
title = "{RNA} Partial Degradation Problem: Motivation,
Complexity, Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "821--834",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Tan:2011:OCF,
author = "Frans E. S. Tan and Val{\'e}ria Lima Passos",
title = "On the {$A$}-Optimality Criterion for Finding
Two-Color Microarray Optimal Designs",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "835--841",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0009",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0009;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0009",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2011",
}
@Article{Pacholczyk:2011:ELP,
author = "Marcin Pacholczyk and Marek Kimmel",
title = "Exploring the Landscape of Protein-Ligand Interaction
Energy Using Probabilistic Approach",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "843--850",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0017",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0017;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0017",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 November 2010",
}
@Article{Chen:2011:AOA,
author = "Hong-Bin Chen and Annalisa {De Bonis}",
title = "An Almost Optimal Algorithm for Generalized Threshold
Group Testing with Inhibitors",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "6",
pages = "851--864",
month = jun,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0030",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:22 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0030;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0030",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Pevzner:2011:PSM,
author = "Pavel A. Pevzner and Ron Shamir",
title = "Preface: {2$^{nd}$ Satellite Meeting on Bioinformatics
Education, Research in Computational Molecular Biology
(RECOMB--BE 2010)}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "7",
pages = "865--865",
month = jul,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.007p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.007p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Elhai:2011:HCR,
author = "Jeff Elhai",
title = "Humans, Computers, and the Route to Biological
Insights: Regaining Our Capacity for Surprise",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "7",
pages = "867--878",
month = jul,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0194",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0194;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0194",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2011",
}
@Article{Ma:2011:RHL,
author = "Jian Ma",
title = "Reconstructing the History of Large-Scale Genomic
Changes: Biological Questions and Computational
Challenges",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "7",
pages = "879--893",
month = jul,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Sul:2011:BCP,
author = "Seung-Jin Sul and Tiffani L. Williams",
title = "Big Cat Phylogenies, Consensus Trees, and
Computational Thinking",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "7",
pages = "895--906",
month = jul,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Taneri:2011:TRE,
author = "Bahar Taneri",
title = "Is there Room for Ethics within Bioinformatics
Education?",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "7",
pages = "907--916",
month = jul,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0187",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0187;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0187",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2011",
}
@Article{Koonin:2011:CPT,
author = "Eugene V. Koonin and Pere Puigb{\`o} and Yuri I.
Wolf",
title = "Comparison of Phylogenetic Trees and Search for a
Central Trend in the ``Forest of Life''",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "7",
pages = "917--924",
month = jul,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:24 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2011",
}
@Article{Yu:2011:CDM,
author = "Yi-Kuo Yu and Stephen F. Altschul",
title = "The Complexity of the {Dirichlet} Model for Multiple
Alignment Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "925--939",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0039",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0039;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0039",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2011",
}
@Article{Ye:2011:IDM,
author = "Xugang Ye and Yi-Kuo Yu and Stephen F. Altschul",
title = "On the Inference of {Dirichlet} Mixture Priors for
Protein Sequence Comparison",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "941--954",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0040",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0040;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0040",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2011",
}
@Article{Halldorsson:2011:ADH,
author = "Bjarni V. Halld{\'o}rsson and Dan{\'\i}el F.
Gudbjartsson",
title = "An Algorithm for Detecting High Frequency Copy Number
Polymorphisms Using {SNP} Arrays",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "955--966",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0317",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0317;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0317",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2011",
}
@Article{Snir:2011:TMP,
author = "Sagi Snir and Lior Pachter",
title = "Tracing the Most Parsimonious Indel History",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "967--986",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0325",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0325;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0325",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2011",
}
@Article{Freschi:2011:IBN,
author = "Valerio Freschi",
title = "Improved Biological Network Reconstruction Using Graph
{Laplacian} Regularization",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "987--996",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0232;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2011",
}
@Article{Knapp:2011:ICD,
author = "B. Knapp and S. Frantal and M. Cibena and W. Schreiner
and P. Bauer",
title = "Is an Intuitive Convergence Definition of Molecular
Dynamics Simulations Solely Based on the Root Mean
Square Deviation Possible?",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "997--1005",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0237;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0237",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2011",
}
@Article{Firoz:2011:AAS,
author = "Jesun Sahariar Firoz and Masud Hasan and Ashik Zinnat
Khan and M. Sohel Rahman",
title = "The 1.375 Approximation Algorithm for Sorting by
Transpositions Can Run in {$ O(n \log n) $} Time",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "1007--1011",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0042;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2011",
}
@Article{Kuo:2011:DDC,
author = "Hsien-Chi Kuo and Po-Yu Lin and Ting-Chiun Chung and
Chin-Mei Chao and Liang-Chuan Lai and Mong-Hsun Tsai
and Eric Y. Chuang",
title = "{DBCAT}: Database of {CpG} Islands and Analytical
Tools for Identifying Comprehensive Methylation
Profiles in Cancer Cells",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "8",
pages = "1013--1017",
month = aug,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0038",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:26 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0038;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0038",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2011",
}
@Article{Anonymous:2011:PSW,
author = "Anonymous",
title = "Preface: {Satellite Workshop on Comparative Genomics,
Research in Computational Molecular Biology (RECOMB-CG
2010)}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1019--1021",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.008p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.008p;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.008p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Wittler:2011:CSB,
author = "Roland Wittler and J{\'a}n Ma{\v{n}}uch and Murray
Patterson and Jens Stoye",
title = "Consistency of Sequence-Based Gene Clusters",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1023--1039",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Ouangraoua:2011:AMD,
author = "A{\"\i}da Ouangraoua and Krister M. Swenson and Cedric
Chauve",
title = "A $2$-Approximation for the Minimum Duplication
Speciation Problem",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1041--1053",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Lin:2011:NGE,
author = "Yu Lin and Bernard M. E. Moret",
title = "A New Genomic Evolutionary Model for Rearrangements,
Duplications, and Losses that Applies across Eukaryotes
and Prokaryotes",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1055--1064",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Warren:2011:GAR,
author = "Robert Warren and David Sankoff",
title = "Genome Aliquoting Revisited",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1065--1075",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0087;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0087",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Jiang:2011:ZED,
author = "Minghui Jiang",
title = "The Zero Exemplar Distance Problem",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1077--1086",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0097;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0097",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Bansal:2011:DHH,
author = "Mukul S. Bansal and Guy Banay and J. Peter Gogarten
and Ron Shamir",
title = "Detecting Highways of Horizontal Gene Transfer",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1087--1114",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0066;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0066",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Mongin:2011:MAB,
author = "Emmanuel Mongin and Ken Dewar and Mathieu Blanchette",
title = "Mapping Association between Long-Range {\em
cis\/}-Regulatory Regions and Their Target Genes Using
Synteny",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1115--1130",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0088",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0088;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0088",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Lin:2011:FAP,
author = "Y. Lin and V. Rajan and B. M. E. Moret",
title = "Fast and Accurate Phylogenetic Reconstruction from
High-Resolution Whole-Genome Data and a Novel
Robustness Estimator",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1131--1139",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Uricaru:2011:NDA,
author = "Raluca Uricaru and Alban Mancheron and Eric Rivals",
title = "Novel Definition and Algorithm for Chaining Fragments
with Proportional Overlaps",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1141--1154",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Devillers:2011:RAW,
author = "Hugo Devillers and H{\'e}l{\`e}ne Chiapello and Sophie
Schbath and Meriem {El Karoui}",
title = "Robustness Assessment of Whole Bacterial Genome
Segmentations",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1155--1165",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Braga:2011:DCJ,
author = "Mar{\'\i}lia D. V. Braga and Eyla Willing and Jens
Stoye",
title = "Double Cut and Join with Insertions and Deletions",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1167--1184",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0118",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0118;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0118",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Savard:2011:GHD,
author = "Olivier Tremblay Savard and Yves Gagnon and Denis
Bertrand and Nadia El-Mabrouk",
title = "Genome Halving and Double Distance with Losses",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1185--1199",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Badr:2011:LAP,
author = "Ghada Badr and Krister M. Swenson and David Sankoff",
title = "Listing All Parsimonious Reversal Sequences: New
Algorithms and Perspectives",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1201--1210",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Matroud:2011:ASM,
author = "Atheer A. Matroud and Christopher P. Tuffley and
Michael D. Hendy",
title = "An Algorithm to Solve the Motif Alignment Problem for
Approximate Nested Tandem Repeats in Biological
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1211--1218",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Ouangraoua:2011:TPU,
author = "A{\"\i}da Ouangraoua and Anne Bergeron and Krister M.
Swenson",
title = "Theory and Practice of Ultra-Perfection",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1219--1230",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0086",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0086;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0086",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Kovac:2011:RDM,
author = "Jakub Kov{\'a}{\v{c}} and Robert Warren and
Mar{\'\i}lia D. V. Braga and Jens Stoye",
title = "Restricted {DCJ} Model: Rearrangement Problems with
Chromosome Reincorporation",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1231--1241",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Manuch:2011:CGC,
author = "J{\'a}n Ma{\v{n}}uch and Murray Patterson",
title = "The Complexity of the Gapped Consecutive-Ones Property
Problem for Matrices of Bounded Maximum Degree",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1243--1253",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0128",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0128;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0128",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Jahn:2011:ECA,
author = "Katharina Jahn",
title = "Efficient Computation of Approximate Gene Clusters
Based on Reference Occurrences",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "9",
pages = "1255--1274",
month = sep,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0132",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0132;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0132",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2011",
}
@Article{Akutsu:2011:DSA,
author = "Tatsuya Akutsu and Avraham A. Melkman and Takeyuki
Tamura and Masaki Yamamoto",
title = "Determining a Singleton Attractor of a {Boolean}
Network with Nested Canalyzing Functions",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1275--1290",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0281",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0281;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0281",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2011",
}
@Article{Graudenzi:2011:DPB,
author = "Alex Graudenzi and Roberto Serra and Marco Villani and
Chiara Damiani and Annamaria Colacci and Stuart A.
Kauffman",
title = "Dynamical Properties of a {Boolean} Model of Gene
Regulatory Network with Memory",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1291--1303",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0069;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0069",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2011",
}
@Article{Collins:2011:QHR,
author = "Joshua Collins and Simone Linz and Charles Semple",
title = "Quantifying Hybridization in Realistic Time",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1305--1318",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0166",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0166;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0166",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Barreto-Hernadez:2011:PPO,
author = "Emiliano Barreto-Hernadez and Margarida Gama-Carvalho
and Lisete Sousa",
title = "Pre-Processing Optimization of {RNA}
Immunoprecipitation Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1319--1328",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0020;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0020",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 July 2011",
}
@Article{Kim:2011:BDU,
author = "Hoon Kim and John Watkinson and Dimitris Anastassiou",
title = "Biomarker Discovery Using Statistically Significant
Gene Sets",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1329--1338",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0085",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0085;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0085",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2011",
}
@Article{Saule:2011:CRP,
author = "C{\'e}dric Saule and Mireille R{\'e}gnier and
Jean-Marc Steyaert and Alain Denise",
title = "Counting {RNA} Pseudoknotted Structures",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1339--1351",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0086",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0086;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0086",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2011",
}
@Article{Lopes:2011:GEC,
author = "Fabr{\'\i}cio M. Lopes and Roberto M. {Cesar, Jr.} and
Luciano {Da F.Costa}",
title = "Gene Expression Complex Networks: Synthesis,
Identification, and Analysis",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "10",
pages = "1353--1367",
month = oct,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0118",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0118;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0118",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2011",
}
@Article{Bafna:2011:PRC,
author = "Vineet Bafna",
title = "Preface: {Research in Computational Molecular Biology
(RECOMB 2011)}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1369--1369",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.009p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.009p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 November 2011",
}
@Article{Mohimani:2011:MNS,
author = "Hosein Mohimani and Wei-Ting Liu and Yu-Liang Yang and
Susana P. Gaud{\^e}ncio and William Fenical and Pieter
C. Dorrestein and Pavel A. Pevzner",
title = "Multiplex {De} {Novo} Sequencing of Peptide
Antibiotics",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1371--1381",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0158",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0158;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0158",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Scheubert:2011:CFT,
author = "Kerstin Scheubert and Franziska Hufsky and Florian
Rasche and Sebastian B{\"o}cker",
title = "Computing Fragmentation Trees from Metabolite Multiple
Mass Spectrometry Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1383--1397",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0168",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0168;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0168",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Leiserson:2011:IMC,
author = "Mark D. M. Leiserson and Diana Tatar and Lenore J.
Cowen and Benjamin J. Hescott",
title = "Inferring Mechanisms of Compensation from {E-MAP} and
{SGA} Data Using Local Search Algorithms for Max Cut",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1399--1409",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0191",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0191;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0191",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 September 2011",
}
@Article{Li:2011:HRL,
author = "Xin Li and Jing Li",
title = "Haplotype Reconstruction in Large Pedigrees with
Untyped Individuals through {IBD} Inference",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1411--1421",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0167",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0167;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0167",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 September 2011",
}
@Article{Petri:2011:ESE,
author = "Tobias Petri and Robert K{\"u}ffner and Ralf Zimmer",
title = "Experiment Specific Expression Patterns",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1423--1435",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0159",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0159;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0159",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2011",
}
@Article{Silverbush:2011:OOP,
author = "Dana Silverbush and Michael Elberfeld and Roded
Sharan",
title = "Optimally Orienting Physical Networks",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1437--1448",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 October 2011",
}
@Article{Hickey:2011:PMS,
author = "Glenn Hickey and Mathieu Blanchette",
title = "A Probabilistic Model for Sequence Alignment with
Context-Sensitive Indels",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1449--1464",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 September 2011",
}
@Article{Waldispuhl:2011:UAS,
author = "J{\'e}r{\^o}me Waldisp{\"u}hl and Yann Ponty",
title = "An Unbiased Adaptive Sampling Algorithm for the
Exploration of {RNA} Mutational Landscapes Under
Evolutionary Pressure",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1465--1479",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0181;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Kirkpatrick:2011:PRU,
author = "Bonnie Kirkpatrick and Shuai Cheng Li and Richard M.
Karp and Eran Halperin",
title = "Pedigree Reconstruction Using Identity by Descent",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1481--1493",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Newkirk:2011:AAS,
author = "Daniel Newkirk and Jacob Biesinger and Alvin Chon and
Kyoko Yokomori and Xiaohui Xie",
title = "{AREM}: Aligning Short Reads from {ChIP-Sequencing} by
Expectation Maximization",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1495--1505",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Martin:2011:GAA,
author = "Jeffrey W. Martin and Anthony K. Yan and Chris
Bailey-Kellogg and Pei Zhou and Bruce R. Donald",
title = "A Geometric Arrangement Algorithm for Structure
Determination of Symmetric Protein Homo-Oligomers from
{NOEs} and {RDCs}",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1507--1523",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Zakov:2011:RPI,
author = "Shay Zakov and Yoav Goldberg and Michael Elhadad and
Michal Ziv-ukelson",
title = "Rich Parameterization Improves {RNA} Structure
Prediction",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1525--1542",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0184",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0184;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0184",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Yu:2011:AMB,
author = "Yun Yu and Tandy Warnow and Luay Nakhleh",
title = "Algorithms for {MDC-Based} Multi-Locus Phylogeny
Inference: Beyond Rooted Binary Gene Trees on Single
Alleles",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1543--1559",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0174;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0174",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Erten:2011:VAP,
author = "Sinan Erten and Gurkan Bebek and Mehmet Koyut{\"u}rk",
title = "{Vavien}: an Algorithm for Prioritizing Candidate
Disease Genes Based on Topological Similarity of
Proteins in Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1561--1574",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0154;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 October 2011",
}
@Article{Heath:2011:AEI,
author = "Allison P. Heath and George N. Bennett and Lydia E.
Kavraki",
title = "An Algorithm for Efficient Identification of Branched
Metabolic Pathways",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1575--1597",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 October 2011",
}
@Article{Misra:2011:OBS,
author = "Navodit Misra and Guy Blelloch and R. Ravi and Russell
Schwartz",
title = "An Optimization-Based Sampling Scheme for Phylogenetic
Trees",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1599--1609",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0164",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0164;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0164",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 September 2011",
}
@Article{Sul:2011:IPG,
author = "Jae Hoon Sul and Buhm Han and Eleazar Eskin",
title = "Increasing Power of Groupwise Association Test with
Likelihood Ratio Test",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1611--1624",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2011",
}
@Article{Medvedev:2011:PBG,
author = "Paul Medvedev and Son Pham and Mark Chaisson and Glenn
Tesler and Pavel Pevzner",
title = "Paired {de Bruijn} Graphs: a Novel Approach for
Incorporating Mate Pair Information into Genome
Assemblers",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1625--1634",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 October 2011",
}
@Article{Shenker:2011:ETB,
author = "Solomon Shenker and Charles W. O'Donnell and Srinivas
Devadas and Bonnie Berger and J{\'e}r{\^o}me
Waldisp{\"u}hl",
title = "Efficient Traversal of Beta-Sheet Protein Folding
Pathways Using Ensemble Models",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1635--1647",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0176",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0176;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0176",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 September 2011",
}
@Article{Wauthier:2011:NCS,
author = "Fabian L. Wauthier and Michael I. Jordan and Nebojsa
Jojic",
title = "Nonparametric Combinatorial Sequence Models",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1649--1660",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0175",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0175;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0175",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 November 2011",
}
@Article{Zeng:2011:BAD,
author = "Jianyang Zeng and Kyle E. Roberts and Pei Zhou and
Bruce Randall Donald",
title = "A {Bayesian} Approach for Determining Protein
Side-Chain Rotamer Conformations Using Unassigned {NOE}
Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1661--1679",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2011",
}
@Article{Gao:2011:ORO,
author = "Song Gao and Wing-Kin Sung and Niranjan Nagarajan",
title = "{Opera}: Reconstructing Optimal Genomic Scaffolds with
High-Throughput Paired-End Sequences",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1681--1691",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0170;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 September 2011",
}
@Article{Li:2011:ILR,
author = "Wei Li and Jianxing Feng and Tao Jiang",
title = "{IsoLasso}: a {LASSO} Regression Approach to {RNA-Seq}
Based Transcriptome Assembly",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1693--1707",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 September 2011",
}
@Article{Lin:2011:LCS,
author = "Tien-Ho Lin and Ziv Bar-Joseph and Robert F. Murphy",
title = "Learning Cellular Sorting Pathways Using Protein
Interactions and Sequence Motifs",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1709--1722",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 October 2011",
}
@Article{Amir:2011:BCR,
author = "Amnon Amir and Or Zuk",
title = "Bacterial Community Reconstruction Using Compressed
Sensing",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1723--1741",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 October 2011",
}
@Article{Parker:2011:OCM,
author = "Andrew S. Parker and Karl E. Griswold and Chris
Bailey-Kellogg",
title = "Optimization of Combinatorial Mutagenesis",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "11",
pages = "1743--1756",
month = nov,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0152;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 September 2011",
}
@Article{Chandola:2011:NSI,
author = "Himanshu Chandola and Anthony K. Yan and Shobha
Potluri and Bruce R. Donald and Chris Bailey-Kellogg",
title = "{NMR} Structural Inference of Symmetric
Homo-Oligomers",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "12",
pages = "1757--1775",
month = dec,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0327",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0327;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0327",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 June 2011",
}
@Article{Chen:2011:BPA,
author = "Jiun-Rung Chen and Ye-In Chang",
title = "An Up-Down Bit Pattern Approach to Coregulated and
Negative-Coregulated Gene Clustering of Microarray
Data",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "12",
pages = "1777--1791",
month = dec,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0212",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0212;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0212",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Nebel:2011:LCR,
author = "Markus E. Nebel and Christian M. Reidys and Rita R.
Wang",
title = "Loops in Canonical {RNA} Pseudoknot Structures",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "12",
pages = "1793--1806",
month = dec,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 March 2011",
}
@Article{Adamczak:2011:FGC,
author = "Rafa{\l} Adamczak and Jaroslaw Pillardy and Brinda K.
Vallat and Jaroslaw Meller",
title = "Fast Geometric Consensus Approach for Protein Model
Quality Assessment",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "12",
pages = "1807--1818",
month = dec,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0170;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2011",
}
@Article{Comin:2011:ICM,
author = "Matteo Comin and Davide Verzotto",
title = "The Irredundant Class Method for Remote Homology
Detection of Protein Sequences",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "12",
pages = "1819--1829",
month = dec,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2011",
}
@Article{Li:2011:FMM,
author = "Meng-Rong Li and Yu-Ju Lin and Tzong-Hann Shieh",
title = "The Flux Model of the Movement of Tumor Cells and
Healthy Cells Using a System of Nonlinear Heat
Equations",
journal = j-J-COMPUT-BIOL,
volume = "18",
number = "12",
pages = "1831--1839",
month = dec,
year = "2011",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0050",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0050;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0050",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Devillers:2012:SSM,
author = "Hugo Devillers and Sophie Schbath",
title = "Separating Significant Matches from Spurious Matches
in {DNA} Sequences",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "1--12",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0070",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0070;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0070",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 December 2011",
}
@Article{Movaghar:2012:SST,
author = "Afshin Fayyaz Movaghar and Guillaume Launay and Sophie
Schbath and Jean-Fran{\c{c}}ois Gibrat and
Fran{\c{c}}ois Rodolphe",
title = "Statistical Significance of Threading Scores",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "13--29",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0236",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0236;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0236",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 December 2011",
}
@Article{Karlebach:2012:CLM,
author = "Guy Karlebach and Ron Shamir",
title = "Constructing Logical Models of Gene Regulatory
Networks by Integrating Transcription {Factor--DNA}
Interactions with Expression Data: an Entropy-Based
Approach",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "30--41",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2012",
}
@Article{Yuan:2012:OPG,
author = "Xiguo Yuan and David J. Miller and Junying Zhang and
David Herrington and Yue Wang",
title = "An Overview of Population Genetic Data Simulation",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "42--54",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 December 2011",
}
@Article{Onuki:2012:PMB,
author = "Ritsuko Onuki and Ryo Yamada and Rui Yamaguchi and
Minoru Kanehisa and Tetsuo Shibuya",
title = "Population Model--Based Inter-Diplotype Similarity
Measure for Accurate Diplotype Clustering",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "55--67",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 December 2011",
}
@Article{Chuang:2012:HBC,
author = "Li-Yeh Chuang and Cheng-Huei Yang and Jung-Chike Li
and Cheng-Hong Yang",
title = "A Hybrid {BPSO-CGA} Approach for Gene Selection and
Classification of Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "68--82",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{Winter:2012:ACT,
author = "Pawe{\l} Winter and Rasmus Fonseca",
title = "Adjustable Chain Trees for Proteins",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "1",
pages = "83--99",
month = jan,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0320",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0320;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0320",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2011",
}
@Article{Califano:2012:PRS,
author = "Andrea Califano and Manolis Kellis and Gustavo
Stolovitzky",
title = "Preface: {RECOMB Systems Biology, Regulatory Genomics,
and DREAM 2011} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "101--101",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.010p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.010p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Goncalves:2012:OAS,
author = "Emanuel Gon{\c{c}}alves and Rui Pereira and Isabel
Rocha and Miguel Rocha",
title = "Optimization Approaches for the {{\em In Silico\/}}
Discovery of Optimal Targets for Gene
Over/Underexpression",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "102--114",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0265;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0265",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Amit:2012:ACC,
author = "Roee Amit",
title = "Anti-Cooperative and Cooperative Protein-Protein
Interactions between {TetR} Isoforms on Synthetic
Enhancers",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "115--125",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0257",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0257;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0257",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Sakoparnig:2012:BPC,
author = "Thomas Sakoparnig and Tobias Kockmann and Renato Paro
and Christian Beisel and Niko Beerenwinkel",
title = "Binding Profiles of Chromatin-Modifying Proteins Are
Predictive for Transcriptional Activity and
Promoter-Proximal Pausing",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "126--138",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Ihuegbu:2012:FSD,
author = "Nnamdi E. Ihuegbu and Gary D. Stormo and Jeremy
Buhler",
title = "Fast, Sensitive Discovery of Conserved Genome-Wide
Motifs",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "139--147",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Cosentino:2012:SBG,
author = "Carlo Cosentino and Luca Salerno and Antonio Passanti
and Alessio Merola and Declan G. Bates and Francesco
Amato",
title = "Structural Bistability of the {GAL} Regulatory Network
and Characterization of its Domains of Attraction",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "148--162",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0251;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0251",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Silberberg:2012:LSE,
author = "Yael Silberberg and Assaf Gottlieb and Martin Kupiec
and Eytan Ruppin and Roded Sharan",
title = "Large-Scale Elucidation of Drug Response Pathways in
Humans",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "163--174",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0264",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0264;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0264",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Yang:2012:SPE,
author = "Xinyi Yang and Jennifer E. Dent and Christine
Nardini",
title = "An {$S$-System Parameter Estimation Method (SPEM)} for
Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "175--187",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0269;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0269",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Eduati:2012:DMM,
author = "Federica Eduati and Barbara di Camillo and Michael
Karbiener and Marcel Scheideler and Davide Cor{\`a} and
Michele Caselle and Gianna Toffolo",
title = "Dynamic Modeling of {miRNA-mediated} Feed-Forward
Loops",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "188--199",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0274",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0274;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0274",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Dana:2012:EMS,
author = "Alexandra Dana and Tamir Tuller",
title = "Efficient Manipulations of Synonymous Mutations for
Controlling Translation Rate: an Analytical Approach",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "200--231",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0275;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0275",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Vardi:2012:LCB,
author = "Liram Vardi and Eytan Ruppin and Roded Sharan",
title = "A Linearized Constraint-Based Approach for Modeling
Signaling Networks",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "232--240",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0277",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0277;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0277",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Wang:2012:MNB,
author = "Yi Wang and Henry C. M. Leung and S. M. Yiu and
Francis Y. L. Chin",
title = "{MetaCluster} 4.0: a Novel Binning Algorithm for {NGS}
Reads and Huge Number of Species",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "2",
pages = "241--249",
month = feb,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0276",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0276;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0276",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2012",
}
@Article{Song:2012:CAF,
author = "Kai Song and Ze Zhang and Tuo-Peng Tong and Fang Wu",
title = "Classifier Assessment and Feature Selection for
Recognizing Short Coding Sequences of Human Genes",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "3",
pages = "251--260",
month = mar,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2012",
}
@Article{Ceselli:2012:ADM,
author = "Alberto Ceselli and Sandro Luciano Fornili and
Giovanni Righini",
title = "Algorithms for the Design of Maximum Hydropathic
Complementarity Molecules",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "3",
pages = "261--270",
month = mar,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2012",
}
@Article{David:2012:CBD,
author = "Olivier David and Catherine Lar{\'e}do and Rapha{\"e}l
Leblois and Brigitte Schaeffer and Nicolas Vergne",
title = "Coalescent-Based {DNA} Barcoding: Multilocus Analysis
and Robustness",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "3",
pages = "271--278",
month = mar,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0122;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2012",
}
@Article{Carnevali:2012:CTH,
author = "Paolo Carnevali and Jonathan Baccash and Aaron L.
Halpern and Igor Nazarenko and Geoffrey B. Nilsen and
Krishna P. Pant and Jessica C. Ebert and Anushka
Brownley and Matt Morenzoni and Vitali Karpinchyk and
Bruce Martin and Dennis G. Ballinger and Radoje
Drmanac",
title = "Computational Techniques for Human Genome Resequencing
Using Mated Gapped Reads",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "3",
pages = "279--292",
month = mar,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0201;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0201",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2011",
}
@Article{Jewett:2012:IIG,
author = "Ethan M. Jewett and Noah A. Rosenberg",
title = "{iGLASS}: an Improvement to the {GLASS} Method for
Estimating Species Trees from Gene Trees",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "3",
pages = "293--315",
month = mar,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0231",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0231;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0231",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2012",
}
@Article{Sakhanenko:2012:PLM,
author = "Nikita A. Sakhanenko and David J. Galas",
title = "Probabilistic Logic Methods and Some Applications to
Biology and Medicine",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "3",
pages = "316--336",
month = mar,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0234",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0234;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0234",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2012",
}
@Article{Dost:2012:AMS,
author = "Banu Dost and Nuno Bandeira and Xiangqian Li and
Zhouxin Shen and Steven P. Briggs and Vineet Bafna",
title = "Accurate Mass Spectrometry Based Protein
Quantification via Shared Peptides",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "337--348",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0267",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0267;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0267",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2012",
}
@Article{Li-Thiao-Te:2012:FDC,
author = "S{\'e}bastien Li-Thiao-T{\'e} and Benno Schwikowski",
title = "Feature Detection with Controlled Error Rates in
{LC/MS} Images",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "349--364",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2012",
}
@Article{Wong:2012:SAR,
author = "Thomas K. F. Wong and S. M. Yiu",
title = "Structural Alignment of {RNA} with Triple Helix
Structure",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "365--378",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Stojmirovic:2012:IFI,
author = "Aleksandar Stojmirovi{\'c} and Yi-kuo Yu",
title = "Information Flow in Interaction Networks {II}:
Channels, Path Lengths, and Potentials",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "379--403",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0228;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0228",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 March 2012",
}
@Article{Chen:2012:PDP,
author = "Yen Hung Chen",
title = "The $k$ Partition-Distance Problem",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "404--417",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0186",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0186;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0186",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Arima:2012:IHM,
author = "Serena Arima and Luca Tardella",
title = "Improved Harmonic Mean Estimator for Phylogenetic
Model Evidence",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "418--438",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2012",
}
@Article{Gupta:2012:AHI,
author = "Arvind Gupta and J{\'a}n Ma{\v{n}}uch and Ladislav
Stacho and Xiaohong Zhao",
title = "Algorithm for Haplotype Inference via Galled-Tree
Networks with Simple Galls",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "4",
pages = "439--454",
month = apr,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Bankevich:2012:SNG,
author = "Anton Bankevich and Sergey Nurk and Dmitry Antipov and
Alexey A. Gurevich and Mikhail Dvorkin and Alexander S.
Kulikov and Valery M. Lesin and Sergey I. Nikolenko and
Son Pham and Andrey D. Prjibelski and Alexey V. Pyshkin
and Alexander V. Sirotkin and Nikolay Vyahhi and Glenn
Tesler and Max A. Alekseyev and Pavel A. Pevzner",
title = "{SPAdes}: a New Genome Assembly Algorithm and Its
Applications to Single-Cell Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "455--477",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0021",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0021;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0021",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2012",
}
@Article{Sarkar:2012:SSO,
author = "Deepayan Sarkar and Steve Goldstein and David C.
Schwartz and Michael A. Newton",
title = "Statistical Significance of Optical Map Alignments",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "478--492",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0221",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0221;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0221",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2012",
}
@Article{Terashi:2012:LPT,
author = "Genki Terashi and Tetsuo Shibuya and Mayuko
Takeda-Shitaka",
title = "{LB3D}: a Protein Three-Dimensional Substructure
Search Program Based on the Lower Bound of a Root Mean
Square Deviation Value",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "493--503",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0230",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0230;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0230",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2012",
}
@Article{Bar-Yaakov:2012:UIR,
author = "Nimrod Bar-Yaakov and Zehava Grossman and Nathan
Intrator",
title = "Using Iterative Ridge Regression to Explore
Associations Between Conditioned Variables",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "504--518",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0028",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0028;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0028",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Falconnet:2012:AEE,
author = "Mikael Falconnet and Sarah Behrens",
title = "Accurate Estimations of Evolutionary Times in the
Context of Strong {CpG} Hypermutability",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "519--531",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0135;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0135",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Hamada:2012:CBA,
author = "Michiaki Hamada and Kiyoshi Asai",
title = "A Classification of Bioinformatics Algorithms from the
Viewpoint of Maximizing Expected Accuracy {(MEA)}",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "532--549",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2012",
}
@Article{Behrens:2012:AAW,
author = "Sarah Behrens and Cyril Nicaud and Pierre
Nicod{\`e}me",
title = "An Automaton Approach for Waiting Times in {DNA}
Evolution",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "550--562",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0218",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0218;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0218",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Ibrahim:2012:TBS,
author = "Maysson Al-Haj Ibrahim and Sabah Jassim and Michael
Anthony Cawthorne and Kenneth Langlands",
title = "A Topology-Based Score for Pathway Enrichment",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "5",
pages = "563--573",
month = may,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0182",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0182;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0182",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 April 2012",
}
@Article{Chen:2012:PSI,
author = "Ting Chen and Paul Marjoram and Fengzhu Sun and
Jasmine Xianghong Zhou",
title = "Preface: Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "575--576",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.6pre",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.6pre",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 May 2012",
}
@Article{Aguiar:2012:HFC,
author = "Derek Aguiar and Sorin Istrail",
title = "{HapCompass}: a Fast Cycle Basis Algorithm for
Accurate Haplotype Assembly of Sequence Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "577--590",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Bayzid:2012:EOS,
author = "Md. Shamsuzzoha Bayzid and Tandy Warnow",
title = "Estimating Optimal Species Trees from Incomplete Gene
Trees Under Deep Coalescence",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "591--605",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0037",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0037;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0037",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Frazier:2012:CAI,
author = "Zachary Frazier and Frank Alber",
title = "A Computational Approach to Increase Time Scales in
{Brownian} Dynamics--Based Reaction-Diffusion
Modeling",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "606--618",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0027",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0027;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0027",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Gao:2012:BLP,
author = "Qinghui Gao and Christine Ho and Yingmin Jia and
Jingyi Jessica Li and Haiyan Huang",
title = "Biclustering of Linear Patterns In Gene Expression
Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "619--631",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0032;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0032",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Helmkamp:2012:ICD,
author = "Laura J. Helmkamp and Ethan M. Jewett and Noah A.
Rosenberg",
title = "Improvements to a Class of Distance Matrix Methods for
Inferring Species Trees from Gene Trees",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "632--649",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0042;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Joyce:2012:ESL,
author = "Paul Joyce and Alan Genz and Erkan Ozge Buzbas",
title = "Efficient Simulation and Likelihood Methods for
Non-Neutral Multi-Allele Models",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "650--661",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0033",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0033;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0033",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Kinsella:2012:CBF,
author = "Marcus Kinsella and Vineet Bafna",
title = "Combinatorics of the Breakage--Fusion--Bridge
Mechanism",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "662--678",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0020;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0020",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2012",
}
@Article{Lai:2012:CPA,
author = "Yinglei Lai",
title = "Change-Point Analysis of Paired Allele-Specific Copy
Number Variation Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "679--693",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Lavi:2012:NIC,
author = "Ofer Lavi and Gideon Dror and Ron Shamir",
title = "Network-Induced Classification Kernels for Gene
Expression Profile Analysis",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "694--709",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0065;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0065",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Li:2012:AIF,
author = "Wenyuan Li and Chao Dai and Chun-Chi Liu and Xianghong
Jasmine Zhou",
title = "Algorithm to Identify Frequent Coupled Modules from
Two-Layered Network Series: Application to Study
Transcription and Splicing Coupling",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "710--730",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Luo:2012:NGI,
author = "Li Luo and Yun Zhu and Momiao Xiong",
title = "A Novel Genome-Information Content-Based Statistic for
Genome-Wide Association Analysis Designed for
Next-Generation Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "731--744",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0035",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0035;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0035",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 May 2012",
}
@Article{Manolopoulou:2012:PAI,
author = "Ioanna Manolopoulou and Brent C. Emerson",
title = "Phylogeographic Ancestral Inference Using the
Coalescent Model on Haplotype Trees",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "745--755",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0038",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0038;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0038",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{McPeek:2012:BGI,
author = "Mary Sara McPeek",
title = "{BLUP} Genotype Imputation for Case-Control
Association Testing with Related Individuals and
Missing Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "756--765",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0024;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Ni:2012:RNM,
author = "Shengyu Ni and Martin Vingron",
title = "{R2KS}: a Novel Measure for Comparing Gene Expression
Based on Ranked Gene Lists",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "766--775",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0026",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0026;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0026",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Grover:2012:BTO,
author = "Dhruv Grover and Juan Nunez-Iglesias",
title = "{Betamax}: Towards Optimal Sampling Strategies for
High-Throughput Screens",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "776--784",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0036",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0036;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0036",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Rito:2012:IAH,
author = "Tiago Rito and Charlotte M. Deane and Gesine Reinert",
title = "The Importance of Age and High Degree, in
Protein-Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "785--795",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0054",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0054;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0054",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Schbath:2012:MRG,
author = "Sophie Schbath and V{\'e}ronique Martin and Matthias
Zytnicki and Julien Fayolle and Valentin Loux and
Jean-Fran{\c{c}}ois Gibrat",
title = "Mapping Reads on a Genomic Sequence: an Algorithmic
Overview and a Practical Comparative Analysis",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "796--813",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2012",
}
@Article{Wang:2012:BGA,
author = "Mingjie Wang and Yuzhen Ye and Haixu Tang",
title = "A {{\em de Bruijn\/}} Graph Approach to the
Quantification of Closely-Related Genomes in a
Microbial Community",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "814--825",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0058",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0058;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0058",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Xu:2012:GLM,
author = "Jialin Xu and Yu Zhang",
title = "A Generalized Linear Model for Peak Calling in
{ChIP-Seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "826--838",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 April 2012",
}
@Article{Zhai:2012:NCP,
author = "Zhiyuan Zhai and Gesine Reinert and Kai Song and
Michael S. Waterman and Yihui Luan and Fengzhu Sun",
title = "Normal and Compound {Poisson} Approximations for
Pattern Occurrences in {NGS} Reads",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "839--854",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2012",
}
@Article{Zhang:2012:VVE,
author = "Jing Zhang and C.-C. Jay Kuo and Liang Chen",
title = "{VERSE}: a Varying Effect Regression for Splicing
Elements Discovery",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "6",
pages = "855--865",
month = jun,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0063;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0063",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 May 2012",
}
@Article{Han:2012:DRS,
author = "Hillary S. W. Han and Christian M. Reidys",
title = "The 5'-3' Distance of {RNA} Secondary Structures",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "7",
pages = "867--878",
month = jul,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0301",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0301;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0301",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 June 2012",
}
@Article{Gniewek:2012:OPP,
author = "Pawe{\l} Gniewek and Andrzej Kolinski and Dominik
Gront",
title = "Optimization of Profile-to-Profile Alignment
Parameters for One-Dimensional Threading",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "7",
pages = "879--886",
month = jul,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0307",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0307;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0307",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 June 2012",
}
@Article{Tvedebrink:2012:ICD,
author = "Torben Tvedebrink and Poul Svante Eriksen and Helle
Smidt Mogensen and Niels Morling",
title = "Identifying Contributors of {DNA} Mixtures by Means of
Quantitative Information of {STR} Typing",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "7",
pages = "887--902",
month = jul,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0055",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0055;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0055",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2011",
}
@Article{He:2012:NAT,
author = "Yichao He and Haiyan Tian and Xinlu Zhang and Zhiwei
Wang and Suogang Gao",
title = "Nonadaptive Algorithms for Threshold Group Testing
with Inhibitors and Error-Tolerance",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "7",
pages = "903--910",
month = jul,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0229",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0229;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0229",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2012",
}
@Article{Cunial:2012:PCR,
author = "Fabio Cunial and Alberto Apostolico",
title = "Phylogeny Construction with Rigid Gapped Motifs",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "7",
pages = "911--927",
month = jul,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0060",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0060;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0060",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 June 2012",
}
@Article{Andersen:2012:TRR,
author = "J{\o}rgen E. Andersen and Fenix W. D. Huang and Robert
C. Penner and Christian M. Reidys",
title = "Topology of {RNA-RNA} Interaction Structures",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "7",
pages = "928--943",
month = jul,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0308",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:52 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0308;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0308",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 June 2012",
}
@Article{Cohen:2012:DPS,
author = "Eyal Cohen and Benny Chor",
title = "Detecting Phylogenetic Signals in Eukaryotic Whole
Genome Sequences",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "8",
pages = "945--956",
month = aug,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0122;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 August 2012",
}
@Article{Yi:2012:SPF,
author = "Gangman Yi and Michael R. Thon and Sing-Hoi Sze",
title = "Supervised Protein Family Classification and New
Family Construction",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "8",
pages = "957--967",
month = aug,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0044",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0044;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0044",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 August 2012",
}
@Article{August:2012:UNM,
author = "Elias August",
title = "Using Noise for Model-Testing",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "8",
pages = "968--977",
month = aug,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0134",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0134;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0134",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 August 2012",
}
@Article{Sperrin:2012:RIA,
author = "Matthew Sperrin and Thomas Jaki",
title = "Recovering Independent Associations in Genetics: a
Comparison",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "8",
pages = "978--987",
month = aug,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0141",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:54 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0141;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0141",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 August 2012",
}
@Article{Bolouri:2012:ICS,
author = "Hamid Bolouri and Walter L. Ruzzo",
title = "Integration of 198 {ChIP-seq} Datasets Reveals Human
{\em cis\/}-Regulatory Regions",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "989--997",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2012",
}
@Article{Kirkpatrick:2012:CPG,
author = "Bonnie Kirkpatrick and Yakir Reshef and Hilary
Finucane and Haitao Jiang and Binhai Zhu and Richard M.
Karp",
title = "Comparing Pedigree Graphs",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "998--1014",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0254",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0254;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0254",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2012",
}
@Article{Gonzalez:2012:EMA,
author = "M. Gonz{\'a}lez and C. Guti{\'e}rrez and R.
Mart{\'\i}nez",
title = "Expectation-Maximization Algorithm for Determining
Natural Selection of {Y}-Linked Genes Through Two-Sex
Branching Processes",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "1015--1026",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0242",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0242;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0242",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 August 2012",
}
@Article{Wu:2012:DPC,
author = "Min Wu and Xiao-li Li and Chee-Keong Kwoh and
See-Kiong Ng and Limsoon Wong",
title = "Discovery of Protein Complexes with Core-Attachment
Structures from Tandem Affinity Purification {(TAP)}
Data",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "1027--1042",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0293",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0293;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0293",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 July 2011",
}
@Article{Hossain:2012:NNI,
author = "M. Shahriar Hossain and Monika Akbar and Nicholas F.
Polys",
title = "Narratives in the Network: Interactive Methods for
Mining Cell Signaling Networks",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "1043--1059",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2012",
}
@Article{Schindler:2012:SAV,
author = "Christina Schindler and Wolfgang B. Fischer",
title = "Sequence Alignment of Viral Channel Proteins with
Cellular Ion Channels",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "1060--1072",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0297",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0297;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0297",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 August 2012",
}
@Article{Cui:2012:PTA,
author = "Yun Cui and Jesper Jansson and Wing-Kin Sung",
title = "Polynomial-Time Algorithms for Building a Consensus
{MUL-Tree}",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "9",
pages = "1073--1088",
month = sep,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:56 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 September 2012",
}
@Article{Mori:2012:CBM,
author = "Tomoya Mori and Takeyuki Tamura and Daiji Fukagawa and
Atsuhiro Takasu and Etsuji Tomita and Tatsuya Akutsu",
title = "A Clique-Based Method Using Dynamic Programming for
Computing Edit Distance Between Unordered Trees",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1089--1104",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Han:2012:PTE,
author = "Hillary S. W. Han and Christian M. Reidys",
title = "A Phase Transition in Energy-Filtered {RNA} Secondary
Structures",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1105--1119",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Saffarian:2012:RLO,
author = "Azadeh Saffarian and Mathieu Giraud and Antoine de
Monte and H{\'e}l{\`e}ne Touzet",
title = "{RNA} Locally Optimal Secondary Structures",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1120--1133",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2010.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2010.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2010.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Nebel:2012:ACP,
author = "Markus E. Nebel and Frank Weinberg",
title = "Algebraic and Combinatorial Properties of Common {RNA}
Pseudoknot Classes with Applications",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1134--1150",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0094",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0094;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0094",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Rabie:2012:SSA,
author = "Huwaida S. Rabie and Ian W. Saunders",
title = "A Simulation Study to Assess a Variable Selection
Method for Selecting Single Nucleotide Polymorphisms
Associated with Disease",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1151--1161",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0105",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0105;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0105",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Roy:2012:SSL,
author = "Rajat S. Roy and Kevin C. Chen and Anirvan M. Sengupta
and Alexander Schliep",
title = "{SLIQ}: Simple Linear Inequalities for Efficient
Contig Scaffolding",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1162--1175",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0263",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0263;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0263",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Dixit:2012:FPM,
author = "Narendra M. Dixit and Piyush Srivastava and Nisheeth
K. Vishnoi",
title = "A Finite Population Model of Molecular Evolution:
Theory and Computation",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1176--1202",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Fonseca:2012:BVP,
author = "Rasmus Fonseca and Pawe{\l} Winter",
title = "Bounding Volumes for Proteins: a Comparative Study",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "10",
pages = "1203--1213",
month = oct,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0104",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:50:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0104;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0104",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2012",
}
@Article{Lu:2012:PSS,
author = "I-Lin Lu and Hsiuying Wang",
title = "Protein-specific Scoring Method for Ligand Discovery",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "11",
pages = "1215--1226",
month = nov,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2012",
}
@Article{Scornavacca:2012:FST,
author = "Celine Scornavacca and Simone Linz and Benjamin
Albrecht",
title = "A First Step Toward Computing All Hybridization
Networks For Two Rooted Binary Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "11",
pages = "1227--1242",
month = nov,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0192",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0192;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0192",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 November 2012",
}
@Article{Veselsky:2012:OPA,
author = "M. Veselsky",
title = "Order of Precedence and Age of {Y-DNA} Haplotypes",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "11",
pages = "1243--1250",
month = nov,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2012",
}
@Article{Ehler:2012:LLB,
author = "M. Ehler and F. Filbir and H. N. Mhaskar",
title = "Locally Learning Biomedical Data Using Diffusion
Frames",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "11",
pages = "1251--1264",
month = nov,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0187",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0187;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0187",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 October 2012",
}
@Article{Hamada:2012:DUR,
author = "Michiaki Hamada",
title = "Direct Updating of an {RNA} Base-Pairing Probability
Matrix with Marginal Probability Constraints",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "12",
pages = "1265--1276",
month = dec,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0215;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2012",
}
@Article{Toyoizumi:2012:END,
author = "Hiroshi Toyoizumi and Hideo Tsubouchi",
title = "Estimating the Number of Double-{Strand} Breaks Formed
During Meiosis from Partial Observation",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "12",
pages = "1277--1283",
month = dec,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2012",
}
@Article{Fan:2012:ICP,
author = "Jia-Hao Fan and Jianer Chen and Sing-Hoi Sze",
title = "Identifying Complexes from Protein Interaction
Networks According to Different Types of Neighborhood
Density",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "12",
pages = "1284--1294",
month = dec,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0195",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0195;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0195",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2012",
}
@Article{Reyes:2012:AGG,
author = "R. Reyes and D. Gamermann and A. Montagud and D.
Fuente and J. Triana and J. F. Urchuegu{\'\i}a and P.
Fern{\'a}ndez de C{\'o}rdoba",
title = "Automation on the Generation of Genome-Scale Metabolic
Models",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "12",
pages = "1295--1306",
month = dec,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0183",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0183;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0183",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2012",
}
@Article{Chang:2012:OBI,
author = "Young Hwan Chang and Joe Gray and Claire Tomlin",
title = "Optimization-based Inference for Temporally Evolving
Networks with Applications in Biology",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "12",
pages = "1307--1323",
month = dec,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0190",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0190;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0190",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2012",
}
@Article{Pei:2012:RBN,
author = "Baikang Pei and Dong-Guk Shin",
title = "Reconstruction of Biological Networks by Incorporating
Prior Knowledge into {Bayesian} Network Models",
journal = j-J-COMPUT-BIOL,
volume = "19",
number = "12",
pages = "1324--1334",
month = dec,
year = "2012",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0194",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0194;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0194",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2012",
}
@Article{Nguyen:2013:DMD,
author = "Viet-An Nguyen and Jordan Boyd-Graber and Stephen F.
Altschul",
title = "{Dirichlet} Mixtures, the {Dirichlet} Process, and the
Structure of Protein Space",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "1",
pages = "1--18",
month = jan,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2013",
}
@Article{Yang:2013:LLA,
author = "Lianping Yang and Xiangde Zhang and Tianming Wang and
Hegui Zhu",
title = "Large Local Analysis of the Unaligned Genome and Its
Application",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "1",
pages = "19--29",
month = jan,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2013",
}
@Article{Telles:2013:LP,
author = "Guilherme P. Telles and Nalvo F. Almeida and Rosane
Minghim and Maria Emilia M. T. Walter",
title = "Live Phylogeny",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "1",
pages = "30--37",
month = jan,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2013",
}
@Article{Chen:2013:UTM,
author = "Zhi-Zhong Chen and Lusheng Wang",
title = "An Ultrafast Tool for Minimum Reticulate Networks",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "1",
pages = "38--41",
month = jan,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0240",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0240;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0240",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2013",
}
@Article{Huang:2013:MVT,
author = "Hong Huang and Yongji Li",
title = "{MASTtreedist}: Visualization of Tree Space Based on
Maximum Agreement Subtree",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "1",
pages = "42--49",
month = jan,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2013",
}
@Article{Allman:2013:STI,
author = "Elizabeth S. Allman and James H. Degnan and John A.
Rhodes",
title = "Species Tree Inference by the {STAR} Method and Its
Generalizations",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "1",
pages = "50--61",
month = jan,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2013",
}
@Article{Chor:2013:PR,
author = "Benny Chor",
title = "Preface: {RECOMB 2012}",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "63--63",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.007p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.007p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{Song:2013:AFS,
author = "Kai Song and Jie Ren and Zhiyuan Zhai and Xuemei Liu
and Minghua Deng and Fengzhu Sun",
title = "Alignment-Free Sequence Comparison Based on
Next-Generation Sequencing Reads",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "64--79",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0228;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0228",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{He:2013:HSO,
author = "Dan He and Buhm Han and Eleazar Eskin",
title = "{Hap}-seq: an Optimal Algorithm for Haplotype Phasing
with Imputation Using Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "80--92",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0091;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0091",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{Roch:2013:RTT,
author = "Sebastien Roch and Sagi Snir",
title = "Recovering the Treelike Trend of Evolution Despite
Extensive Lateral Genetic Transfer: a Probabilistic
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "93--112",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0234",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0234;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0234",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{Topfer:2013:PIV,
author = "Armin T{\"o}pfer and Osvaldo Zagordi and Sandhya
Prabhakaran and Volker Roth and Eran Halperin and Niko
Beerenwinkel",
title = "Probabilistic Inference of Viral Quasispecies Subject
to Recombination",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "113--123",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0232;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{Tuncbag:2013:SRM,
author = "Nurcan Tuncbag and Alfredo Braunstein and Andrea
Pagnani and Shao-Shan Carol Huang and Jennifer Chayes
and Christian Borgs and Riccardo Zecchina and Ernest
Fraenkel",
title = "Simultaneous Reconstruction of Multiple Signaling
Pathways via the Prize-Collecting {Steiner} Forest
Problem",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "124--136",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{He:2013:BBB,
author = "Lu He and Fabio Vandin and Gopal Pandurangan and Chris
Bailey-Kellogg",
title = "{Ballast}: a Ball-based Algorithm for Structural
Motifs",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "137--151",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0246",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0246;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0246",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{Parker:2013:SGD,
author = "Andrew S. Parker and Yoonjoo Choi and Karl E. Griswold
and Chris Bailey-Kellogg",
title = "Structure-Guided Deimmunization of Therapeutic
Proteins",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "2",
pages = "152--165",
month = feb,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0251;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0251",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2013",
}
@Article{Huang:2013:RMT,
author = "Yan Huang and Yin Hu and Corbin D. Jones and James N.
MacLeod and Derek Y. Chiang and Yufeng Liu and Jan F.
Prins and Jinze Liu",
title = "A Robust Method for Transcript Quantification with
{RNA-Seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "167--187",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0230",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0230;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0230",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2013",
}
@Article{Canzar:2013:CGP,
author = "Stefan Canzar and Mohammed El-Kebir and Ren{\'e} Pool
and Khaled Elbassioni and Alpeshkumar K. Malde and Alan
E. Mark and Daan P. Geerke and Leen Stougie and Gunnar
W. Klau",
title = "Charge Group Partitioning in Biomolecular Simulation",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "188--198",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0239",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0239;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0239",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2013",
}
@Article{Rodriguez:2013:AIC,
author = "Jesse M. Rodriguez and Sivan Bercovici and Megan
Elmore and Serafim Batzoglou",
title = "Ancestry Inference in Complex Admixtures via
Variable-length {Markov} Chain Linkage Models",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "199--211",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0088",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0088;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0088",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2013",
}
@Article{Holtby:2013:LLM,
author = "Daniel Holtby and Shuai Cheng Li and Ming Li",
title = "{LoopWeaver}: Loop Modeling by the Weighted Scaling of
Verified Proteins",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "212--223",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2013",
}
@Article{Wang:2013:CCN,
author = "Zhanyong Wang and Farhad Hormozdiari and Wen-Yun Yang
and Eran Halperin and Eleazar Eskin",
title = "{CNVeM}: Copy Number Variation Detection Using
Uncertainty of Read Mapping",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "224--236",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2013",
}
@Article{Zhang:2013:SLD,
author = "ZhiZhuo Zhang and Cheng Wei Chang and Willy Hugo and
Edwin Cheung and Wing-Kin Sung",
title = "Simultaneously Learning {DNA} Motif Along with Its
Position and Sequence Rank Preferences Through
Expectation Maximization Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "237--248",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0233",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0233;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0233",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2013",
}
@Article{Sharan:2013:RBM,
author = "Roded Sharan and Richard M. Karp",
title = "Reconstructing {Boolean} Models of Signaling",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "3",
pages = "249--257",
month = mar,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0241",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:08 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0241;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0241",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2013",
}
@Article{Kececioglu:2013:AEP,
author = "John Kececioglu and Dan DeBlasio",
title = "Accuracy Estimation and Parameter Advising for Protein
Multiple Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "259--279",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 March 2013",
}
@Article{Holloway:2013:AGO,
author = "Patrick Holloway and Krister Swenson and David Ardell
and Nadia El-Mabrouk",
title = "Ancestral Genome Organization: an Alignment Approach",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "280--295",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0292",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0292;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0292",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2013",
}
@Article{Alipanahi:2013:DPS,
author = "Babak Alipanahi and Nathan Krislock and Ali Ghodsi and
Henry Wolkowicz and Logan Donaldson and Ming Li",
title = "Determining Protein Structures from {NOESY} Distance
Constraints by Semidefinite Programming",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "296--310",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0089",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0089;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0089",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 October 2012",
}
@Article{Rauf:2013:FMC,
author = "Imran Rauf and Florian Rasche and Fran{\c{c}}ois
Nicolas and Sebastian B{\"o}cker",
title = "Finding Maximum Colorful Subtrees in Practice",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "311--321",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 March 2013",
}
@Article{Wang:2013:FFC,
author = "Hua Wang and Heng Huang and Chris Ding",
title = "Function--Function Correlated Multi-label Protein
Function Prediction over Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "322--343",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0272",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0272;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0272",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2013",
}
@Article{Wang:2013:PPP,
author = "Hua Wang and Heng Huang and Chris Ding and Feiping
Nie",
title = "Predicting Protein--Protein Interactions from
Multimodal Biological Data Sources via Nonnegative
Matrix Tri-Factorization",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "344--358",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0273",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0273;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0273",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 March 2013",
}
@Article{Pham:2013:PGN,
author = "Son K. Pham and Dmitry Antipov and Alexander Sirotkin
and Glenn Tesler and Pavel A. Pevzner and Max A.
Alekseyev",
title = "Pathset Graphs: a Novel Approach for Comprehensive
Utilization of Paired Reads in Genome Assembly",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "4",
pages = "359--371",
month = apr,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:11 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 July 2012",
}
@Article{Califano:2013:PRS,
author = "Andrea Califano and Manolis Kellis and Gustavo
Stolovitzky",
title = "Preface: {RECOMB Systems Biology, Regulatory Genomics,
and DREAM 2012} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "5",
pages = "373--374",
month = may,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.008p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.008p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2013",
}
@Article{Orenstein:2013:RAF,
author = "Yaron Orenstein and Eran Mick and Ron Shamir",
title = "{RAP}: Accurate and Fast Motif Finding Based on
Protein-Binding Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "5",
pages = "375--382",
month = may,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 March 2013",
}
@Article{Pagliarini:2013:GSM,
author = "Roberto Pagliarini and Diego di Bernardo",
title = "A Genome-Scale Modeling Approach to Study Inborn
Errors of Liver Metabolism: Toward an In Silico
Patient",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "5",
pages = "383--397",
month = may,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0276",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0276;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0276",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 March 2013",
}
@Article{Tjarnberg:2013:OSC,
author = "Andreas Tj{\"a}rnberg and Torbj{\"o}rn E. M. Nordling
and Matthew Studham and Erik L. L. Sonnhammer",
title = "Optimal Sparsity Criteria for Network Inference",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "5",
pages = "398--408",
month = may,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0268",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0268;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0268",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2013",
}
@Article{Poirel:2013:TNA,
author = "Christopher L. Poirel and Richard R. Rodrigues and
Katherine C. Chen and John J. Tyson and T. M. Murali",
title = "Top-Down Network Analysis to Drive Bottom-Up Modeling
of Physiological Processes",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "5",
pages = "409--418",
month = may,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0274",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0274;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0274",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2013",
}
@Article{Faure:2013:NSP,
author = "Emmanuel Faure and Isabelle S. Peter and Eric H.
Davidson",
title = "A New Software Package for Predictive Gene Regulatory
Network Modeling and Redesign",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "6",
pages = "419--423",
month = jun,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0297",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0297;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0297",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2013",
}
@Article{Preparata:2013:CC,
author = "Franco P. Preparata",
title = "On Contigs and Coverage",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "6",
pages = "424--432",
month = jun,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 May 2013",
}
@Article{Antosh:2013:CCR,
author = "Michael Antosh and David Fox and Leon N. Cooper and
Nicola Neretti",
title = "{CORaL}: Comparison of Ranked Lists for Analysis of
Gene Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "6",
pages = "433--443",
month = jun,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0017",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0017;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0017",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 May 2013",
}
@Article{Wang:2013:BMA,
author = "Cong-Jun Wang and Rong-Hua Xu and Qiong-Ying Yuan and
Yong-Kun Wang and Dong-Wei Shen and Xu-Jing Wang and
Wei Gao and Hui Zhang and Hua Jiang",
title = "Bioinformatics Method to Analyze the Mechanism of
Pancreatic Cancer Disorder",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "6",
pages = "444--452",
month = jun,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0281",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0281;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0281",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2013",
}
@Article{Prabhakara:2013:MUH,
author = "Shruthi Prabhakara and Raunaq Malhotra and Raj Acharya
and Mary Poss",
title = "{Mutant-Bin}: Unsupervised Haplotype Estimation of
Viral Population Diversity Without Reference Genome",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "6",
pages = "453--463",
month = jun,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0174;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0174",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2013",
}
@Article{Chang:2013:TGT,
author = "Huilan Chang and Hung-Lin Fu and ChiH-Huai Shih",
title = "Threshold Group Testing on Inhibitor Model",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "6",
pages = "464--470",
month = jun,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0224",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0224;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0224",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2013",
}
@Article{Behnam:2013:GIL,
author = "Ehsan Behnam and Michael S. Waterman and Andrew D.
Smith",
title = "A Geometric Interpretation for Local Alignment-Free
Sequence Comparison",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "7",
pages = "471--485",
month = jul,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0280",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0280;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0280",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2013",
}
@Article{Chitsaz:2013:EAU,
author = "Hamidreza Chitsaz and Elmirasadat Forouzmand and
Gholamreza Haffari",
title = "An Efficient Algorithm for Upper Bound on the
Partition Function of Nucleic Acids",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "7",
pages = "486--494",
month = jul,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 April 2013",
}
@Article{Qin:2013:TRI,
author = "Jing Qin and Christian M. Reidys",
title = "On Topological {RNA} Interaction Structures",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "7",
pages = "495--513",
month = jul,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0282",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0282;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0282",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2013",
}
@Article{Wen:2013:CGW,
author = "Yalu Wen and Ming Li and Wenjiang J. Fu",
title = "Catching the Genomic Wave in Oligonucleotide
Single-Nucleotide Polymorphism Arrays by Modeling
Sequence Binding",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "7",
pages = "514--523",
month = jul,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 June 2013",
}
@Article{Kim:2013:MDD,
author = "Jaejik Kim and Jiaxu Li and Srirangapatnam G.
Venkatesh and Douglas S. Darling and Grzegorz A.
Rempala",
title = "Model Discrimination in Dynamic Molecular Systems:
Application to Parotid {De}-differentiation Network",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "7",
pages = "524--539",
month = jul,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2011.0222",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2011.0222;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2011.0222",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2013",
}
@Article{Leung:2013:IMN,
author = "Henry C. M. Leung and Siu-Ming Yiu and John Parkinson
and Francis Y. L. Chin",
title = "{IDBA-MT}: {{\em {De} Novo\/}} Assembler for
Metatranscriptomic Data Generated from Next-Generation
Sequencing Technology",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "7",
pages = "540--550",
month = jul,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0042;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 July 2013",
}
@Article{Koepke:2013:EIE,
author = "Hoyt Koepke and Elizabeth Thompson",
title = "Efficient Identification of Equivalences in Dynamic
Graphs and Pedigree Structures",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "8",
pages = "551--570",
month = aug,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0032;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0032",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2013",
}
@Article{Kayano:2013:MOA,
author = "Mitsunori Kayano and Seiya Imoto and Rui Yamaguchi and
Satoru Miyano",
title = "Multi-omics Approach for Estimating Metabolic Networks
Using Low-Order Partial Correlations",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "8",
pages = "571--582",
month = aug,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0043",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0043;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0043",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2013",
}
@Article{Flygare:2013:IAI,
author = "Steven Flygare and Michael Campbell and Robert Mars
Ross and Barry Moore and Mark Yandell",
title = "{ImagePlane}: an Automated Image Analysis Pipeline for
High-Throughput Screens Using the Planarian
\bioname{Schmidtea mediterranea}",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "8",
pages = "583--592",
month = aug,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 July 2013",
}
@Article{Giaquinta:2013:EEA,
author = "Emanuele Giaquinta and Laura Pozzi",
title = "An Effective Exact Algorithm and a New Upper Bound for
the Number of Contacts in the Hydrophobic-Polar
Two-Dimensional Lattice Model",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "8",
pages = "593--609",
month = aug,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0266",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0266;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0266",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2013",
}
@Article{Hedjazi:2013:SDA,
author = "Lyamine Hedjazi and Marie-Veronique {Le Lann} and
Tatiana Kempowsky and Florence Dalenc and Joseph
Aguilar-Martin and Gilles Favre",
title = "Symbolic Data Analysis to Defy Low Signal-to-Noise
Ratio in Microarray Data for Breast Cancer Prognosis",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "8",
pages = "610--620",
month = aug,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2013",
}
@Article{Giaquinta:2013:FMT,
author = "Emanuele Giaquinta and Szymon Grabowski and Esko
Ukkonen",
title = "Fast Matching of Transcription Factor Motifs Using
Generalized Position Weight Matrix Models",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "621--630",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0289",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0289;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0289",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 August 2013",
}
@Article{Dutkowski:2013:PMN,
author = "Janusz Dutkowski and Jerzy Tiuryn",
title = "A Probabilistic Model of Neutral and Selective
Dynamics of Protein Network Evolution",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "631--642",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0295",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0295;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0295",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 August 2013",
}
@Article{Andreotti:2013:DLS,
author = "Sandro Andreotti and Knut Reinert and Stefan Canzar",
title = "The Duplication-Loss Small Phylogeny Problem: From
Cherries to Trees",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "643--659",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0057",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0057;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0057",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 September 2013",
}
@Article{Seligmann:2013:TDR,
author = "Herv{\'e} Seligmann",
title = "Triplex {DNA:RNA}, 3'-to-5' Inverted {RNA} and Protein
Coding in Mitochondrial Genomes",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "660--671",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0134",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0134;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0134",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2013",
}
@Article{Chapuis:2013:GPU,
author = "Guillaume Chapuis and Olivier Filangi and Jean-Michel
Elsen and Dominique Lavenier and Pascale {Le Roy}",
title = "Graphics Processing Unit--Accelerated Quantitative
Trait Loci Detection",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "672--686",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 September 2013",
}
@Article{Nettelblad:2013:FAD,
author = "Carl Nettelblad and Behrang Mahjani and Sverker
Holmgren",
title = "Fast and Accurate Detection of Multiple Quantitative
Trait Loci",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "687--702",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0242",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0242;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0242",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 August 2013",
}
@Article{Rao:2013:NMQ,
author = "Xiayu Rao and Dejian Lai and Xuelin Huang",
title = "A New Method for Quantitative Real-Time Polymerase
Chain Reaction Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "9",
pages = "703--711",
month = sep,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0279",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:20 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0279;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0279",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2013",
}
@Article{Sun:2013:PRC,
author = "Fengzhu Sun",
title = "Preface: {Research in Computational Molecular Biology
(RECOMB 2013)}",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "713--713",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.020p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.020p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2013",
}
@Article{Nurk:2013:ASC,
author = "Sergey Nurk and Anton Bankevich and Dmitry Antipov and
Alexey A. Gurevich and Anton Korobeynikov and Alla
Lapidus and Andrey D. Prjibelski and Alexey Pyshkin and
Alexander Sirotkin and Yakov Sirotkin and Ramunas
Stepanauskas and Scott R. Clingenpeel and Tanja Woyke
and Jeffrey S. Mclean and Roger Lasken and Glenn Tesler
and Max A. Alekseyev and Pavel A. Pevzner",
title = "Assembling Single-Cell Genomes and Mini-Metagenomes
From Chimeric {MDA} Products",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "714--737",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2013",
}
@Article{Bansal:2013:RRH,
author = "Mukul S. Bansal and Eric J. Alm and Manolis Kellis",
title = "Reconciliation Revisited: Handling Multiple Optima
when Reconciling with Duplication, Transfer, and Loss",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "738--754",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 September 2013",
}
@Article{Bryant:2013:AME,
author = "William A. Bryant and Ali A. Faruqi and John W.
Pinney",
title = "Analysis of Metabolic Evolution in Bacteria Using
Whole-Genome Metabolic Models",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "755--764",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0079",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0079;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0079",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 August 2013",
}
@Article{Guo:2013:DPC,
author = "Fei Guo and Shuai Cheng Li and Wenji Ma and Lusheng
Wang",
title = "Detecting Protein Conformational Changes in
Interactions via Scaling Known Structures",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "765--779",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0069;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0069",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2013",
}
@Article{He:2013:IIP,
author = "Dan He and Zhanyong Wang and Buhm Han and Laxmi Parida
and Eleazar Eskin",
title = "{IPED}: Inheritance Path-based Pedigree Reconstruction
Algorithm Using Genotype Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "780--791",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0080",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0080;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0080",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2013",
}
@Article{Wu:2013:ACP,
author = "Yufeng Wu",
title = "An Algorithm for Constructing Parsimonious
Hybridization Networks with Multiple Phylogenetic
Trees",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "792--804",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0072",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0072;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0072",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 October 2013",
}
@Article{Xu:2013:PDC,
author = "Dong Xu and Hua Li and Yang Zhang",
title = "Protein Depth Calculation and the Use for Improving
Accuracy of Protein Fold Recognition",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "805--816",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0071",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0071;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0071",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 August 2013",
}
@Article{Kostem:2013:EIS,
author = "Emrah Kostem and Eleazar Eskin",
title = "Efficiently Identifying Significant Associations in
Genome-wide Association Studies",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "10",
pages = "817--830",
month = oct,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0087;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0087",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 September 2013",
}
@Article{Zhang:2013:CMS,
author = "ZhiZhuo Zhang and Guoliang Li and Kim-Chuan Toh and
Wing-Kin Sung",
title = "{$3$D} Chromosome Modeling with Semi-Definite
Programming and {Hi-C} Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "831--846",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0076",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0076;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0076",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2013",
}
@Article{Chen:2013:SFM,
author = "Shijian Chen and Anqi Wang and Lei M. Li",
title = "{SEME}: a Fast Mapper of Illumina Sequencing Reads
with Statistical Evaluation",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "847--860",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0111",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0111;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0111",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2013",
}
@Article{Eskin:2013:EEA,
author = "Itamar Eskin and Farhad Hormozdiari and Lucia Conde
and Jacques Riby and Christine F. Skibola and Eleazar
Eskin and Eran Halperin",
title = "{eALPS}: Estimating Abundance Levels in Pooled
Sequencing Using Available Genotyping Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "861--877",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0105",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0105;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0105",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2013",
}
@Article{Deng:2013:BPP,
author = "Lei Deng and Jihong Guan and Xiaoming Wei and Yuan Yi
and Qiangfeng Cliff Zhang and Shuigeng Zhou",
title = "Boosting Prediction Performance of Protein--Protein
Interaction Hot Spots by Using Structural Neighborhood
Properties",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "878--891",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2013",
}
@Article{Puniyani:2013:NMU,
author = "Kriti Puniyani and Eric P. Xing",
title = "{NP-MuScL}: Unsupervised Global Prediction of
Interaction Networks from Multiple Data Sources",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "892--904",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0093",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0093;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0093",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2013",
}
@Article{Reinharz:2013:USE,
author = "Vladimir Reinharz and Yann Ponty and J{\'e}r{\^o}me
Waldisp{\"u}hl",
title = "Using Structural and Evolutionary Information to
Detect and Correct Pyrosequencing Errors in Noncoding
{RNAs}",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "905--919",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0085",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0085;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0085",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2013",
}
@Article{Sadeh:2013:CUU,
author = "Mohammad J. Sadeh and Giusi Moffa and Rainer Spang",
title = "Considering Unknown Unknowns: Reconstruction of
Nonconfoundable Causal Relations in Biological
Networks",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "920--932",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0119",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0119;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0119",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2013",
}
@Article{Salari:2013:ITP,
author = "Raheleh Salari and Syed Shayon Saleh and Dorna
Kashef-Haghighi and David Khavari and Daniel E.
Newburger and Robert B. West and Arend Sidow and
Serafim Batzoglou",
title = "Inference of Tumor Phylogenies with Improved Somatic
Mutation Discovery",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "11",
pages = "933--944",
month = nov,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2013",
}
@Article{Blokh:2013:ASP,
author = "Dima Blokh and Danny Segev and Roded Sharan",
title = "The Approximability of Shortest Path-Based Graph
Orientations of Protein--Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "12",
pages = "945--957",
month = dec,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2013",
}
@Article{Melkman:2013:ISA,
author = "Avraham A. Melkman and Tatsuya Akutsu",
title = "An Improved Satisfiability Algorithm for Nested
Canalyzing Functions and its Application to Determining
a Singleton Attractor of a {Boolean} Network",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "12",
pages = "958--969",
month = dec,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0060",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0060;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0060",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2013",
}
@Article{Hart:2013:CSS,
author = "Steven N. Hart and Terry M. Therneau and Yuji Zhang
and Gregory A. Poland and Jean-Pierre Kocher",
title = "Calculating Sample Size Estimates for {RNA} Sequencing
Data",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "12",
pages = "970--978",
month = dec,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0283",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0283;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0283",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 August 2013",
}
@Article{Kirk:2013:BRP,
author = "Paul Kirk and Aviva Witkover and Charles R. M. Bangham
and Sylvia Richardson and Alexandra M. Lewin and
Michael P. H. Stumpf",
title = "Balancing the Robustness and Predictive Performance of
Biomarkers",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "12",
pages = "979--989",
month = dec,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0018",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0018;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0018",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 August 2013",
}
@Article{Nov:2013:OSA,
author = "Yuval Nov and Alexander Fulton and Karl-Erich Jaeger",
title = "Optimal Scanning of All Single-Point Mutants of a
Protein",
journal = j-J-COMPUT-BIOL,
volume = "20",
number = "12",
pages = "990--997",
month = dec,
year = "2013",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0026",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:27 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0026;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0026",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2013",
}
@Article{Kovac:2014:CRP,
author = "Jakub Kov{\'a}{\v{c}}",
title = "On the Complexity of Rearrangement Problems under the
Breakpoint Distance",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "1",
pages = "1--15",
month = jan,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:29 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 November 2013",
}
@Article{Beretta:2014:MAS,
author = "Stefano Beretta and Paola Bonizzoni and Gianluca Della
Vedova and Yuri Pirola and Raffaella Rizzi",
title = "Modeling Alternative Splicing Variants from {RNA-Seq}
Data with Isoform Graphs",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "1",
pages = "16--40",
month = jan,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0112",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:29 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0112;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0112",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 November 2013",
}
@Article{Burden:2014:DWM,
author = "Conrad J. Burden and Paul Leopardi and Sylvain
For{\^e}t",
title = "The Distribution of Word Matches Between {Markovian}
Sequences with Periodic Boundary Conditions",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "1",
pages = "41--63",
month = jan,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0277",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:29 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0277;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0277",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 October 2013",
}
@Article{Ouangraoua:2014:ICC,
author = "A{\"\i}da Ouangraoua and Mathieu Raffinot",
title = "On the Identification of Conflicting Contiguities in
Ancestral Genome Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "1",
pages = "64--79",
month = jan,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0086",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:29 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0086;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0086",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 October 2013",
}
@Article{Li:2014:IRO,
author = "Chuan-Xi Li and Ru-Jing Wang and Peng Chen and He
Huang and Ya-Ru Su",
title = "Interaction Relation Ontology Learning",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "1",
pages = "80--88",
month = jan,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0009",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:29 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0009;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0009",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 December 2013",
}
@Article{Gorecki:2014:DPM,
author = "Pawe{\l} G{\'o}recki and Oliver Eulenstein",
title = "{DrML}: Probabilistic Modeling of Gene Duplications",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "1",
pages = "89--98",
month = jan,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:29 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 September 2013",
}
@Article{Bartolucci:2014:NCM,
author = "Francesco Bartolucci and Silvia Pandolfi",
title = "A New Constant Memory Recursion for Hidden {Markov}
Models",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "2",
pages = "99--117",
month = feb,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2013",
}
@Article{Galas:2014:DCS,
author = "David J. Galas and Nikita A. Sakhanenko and Alexander
Skupin and Tomasz Ignac",
title = "Describing the Complexity of Systems: Multivariable
``Set Complexity'' and the Information Basis of Systems
Biology",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "2",
pages = "118--140",
month = feb,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0039",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0039;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0039",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 December 2013",
}
@Article{Wang:2014:CMC,
author = "Junshan Wang and Ajay Jasra and Maria {De Iorio}",
title = "Computational Methods for a Class of Network Models",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "2",
pages = "141--161",
month = feb,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0082",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0082;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0082",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 October 2013",
}
@Article{Dhifli:2014:SPS,
author = "Wajdi Dhifli and Rabie Saidi and Engelbert Mephu
Nguifo",
title = "Smoothing {$3$D} Protein Structure Motifs Through
Graph Mining and Amino Acid Similarities",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "2",
pages = "162--172",
month = feb,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2013",
}
@Article{Levtov:2014:DNU,
author = "Nissan Levtov and Sandeep Amberkar and Zakharia M.
Frenkel and Lars Kaderali and Zeev Volkovich",
title = "Detecting Non-Uniform Clusters in Large-Scale
Interaction Graphs",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "2",
pages = "173--183",
month = feb,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:31 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 September 2013",
}
@Article{Zheng:2014:JII,
author = "Chaozhi Zheng and Mary K. Kuhner and Elizabeth A.
Thompson",
title = "Joint Inference of Identity by Descent Along Multiple
Chromosomes from Population Samples",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "185--200",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0140",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0140;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0140",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 March 2014",
}
@Article{Ding:2014:CPR,
author = "Yang Ding and William A. Lorenz and Ivan Dotu and Evan
Senter and Peter Clote",
title = "Computing the Probability of {RNA} Hairpin and
Multiloop Formation",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "201--218",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2014",
}
@Article{Lee:2014:DSV,
author = "Heewook Lee and Ellen Popodi and Patricia L. Foster
and Haixu Tang",
title = "Detection of Structural Variants Involving Repetitive
Regions in the Reference Genome",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "219--233",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2014",
}
@Article{Hsieh:2014:FAC,
author = "Mu-Fen Hsieh and Sing-Hoi Sze",
title = "Finding Alignments of Conserved Graphlets in Protein
Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "234--246",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0130",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0130;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0130",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2014",
}
@Article{Plewczynski:2014:HSA,
author = "Dariusz Plewczynski and Anna Philips and Marcin {Von
Grotthuss} and Leszek Rychlewski and Krzysztof
Ginalski",
title = "{HarmonyDOCK}: The Structural Analysis of Poses in
Protein-Ligand Docking",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "247--256",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0111",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0111;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0111",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 November 2010",
}
@Article{Peris:2014:SSN,
author = "Guillermo Peris and Andr{\'e}s Marzal",
title = "Statistical Significance of Normalized Global
Alignment",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "257--268",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0167",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0167;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0167",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2014",
}
@Article{Neuwald:2014:BSO,
author = "Andrew F. Neuwald",
title = "A {Bayesian} Sampler for Optimization of Protein
Domain Hierarchies",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "3",
pages = "269--286",
month = mar,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0099",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:33 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0099;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0099",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2014",
}
@Article{Neuwald:2014:ECI,
author = "Andrew F. Neuwald",
title = "Evaluating, Comparing, and Interpreting Protein Domain
Hierarchies",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "4",
pages = "287--302",
month = apr,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2014",
}
@Article{Kannan:2014:ECP,
author = "Lavanya Kannan and Ward C. Wheeler",
title = "Exactly Computing the Parsimony Scores on Phylogenetic
Networks Using Dynamic Programming",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "4",
pages = "303--319",
month = apr,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0134",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
note = "See correction \cite{Anonymous:2014:CJC}.",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0134;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0134",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2014",
}
@Article{Wang:2014:FMD,
author = "Xun Wang and Ying Miao and Minquan Cheng",
title = "Finding Motifs in {DNA} Sequences Using Low-Dispersion
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "4",
pages = "320--329",
month = apr,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0054",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0054;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0054",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2014",
}
@Article{Comin:2014:PCF,
author = "Matteo Comin and Montse Farreras",
title = "Parallel Continuous Flow: a Parallel Suffix Tree
Construction Tool for Whole Genomes",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "4",
pages = "330--344",
month = apr,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0256",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0256;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0256",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 March 2014",
}
@Article{Kim:2014:EGS,
author = "Seyoung Kim and Eric P. Xing",
title = "Exploiting Genome Structure in Association Analysis",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "4",
pages = "345--360",
month = apr,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0224",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0224;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0224",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2011",
}
@Article{Hochberg:2014:DSP,
author = "Robert Hochberg and Treena Larrew Milam",
title = "Data Structures for Parsimony Correlation and
Biosequence Co-Evolution",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "4",
pages = "361--369",
month = apr,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2008.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2008.0107;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2008.0107",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 June 2009",
}
@Article{Califano:2014:RIS,
author = "Andrea Califano and Manolis Kellis and Gustavo
Stolovitzky",
title = "{RECOMB/ISCB} Systems Biology, Regulatory Genomics,
and {DREAM} 2013 Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "5",
pages = "371--372",
month = may,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.009p",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.009p",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 April 2014",
}
@Article{ONeill:2014:IRT,
author = "Patrick K. O'Neill and Robert Forder and Ivan Erill",
title = "Informational Requirements for Transcriptional
Regulation",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "5",
pages = "373--384",
month = may,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0032;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0032",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2014",
}
@Article{Wang:2014:FAE,
author = "Zhiyong Wang and Jinbo Xu and Xinghua Shi",
title = "Finding Alternative Expression Quantitative Trait Loci
by Exploring Sparse Model Space",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "5",
pages = "385--393",
month = may,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0026",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0026;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0026",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2014",
}
@Article{Mazza:2014:EII,
author = "Arnon Mazza and Irit Gat-Viks and Roded Sharan",
title = "Elucidating Influenza Inhibition Pathways via Network
Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "5",
pages = "394--404",
month = may,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2014",
}
@Article{Cleary:2014:JVN,
author = "John G. Cleary and Ross Braithwaite and Kurt Gaastra
and Brian S. Hilbush and Stuart Inglis and Sean A.
Irvine and Alan Jackson and Richard Littin and Sahar
Nohzadeh-Malakshah and Mehul Rathod and David Ware and
Len Trigg and Francisco M. {De La Vega}",
title = "Joint Variant and {{\em {De} Novo\/}} Mutation
Identification on Pedigrees from High-Throughput
Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "405--419",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2014",
}
@Article{Hu:2014:PSP,
author = "Wei Hu and John Hu",
title = "Prediction of {siRNA} Potency Using Sparse Logistic
Regression",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "420--427",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 November 2010",
}
@Article{Klie:2014:BCE,
author = "Sebastian Klie and Zoran Nikoloski and Joachim
Selbig",
title = "Biological Cluster Evaluation for Gene Function
Prediction",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "428--445",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2009.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2009.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2009.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2010",
}
@Article{Kundeti:2014:BLM,
author = "Vamsi Kundeti and Sanguthevar Rajasekaran and Hieu
Dinh",
title = "Border Length Minimization Problem on a Square Array",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "446--455",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0127",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0127;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0127",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2014",
}
@Article{Gill:2014:CDG,
author = "Nivit Gill and Shailendra Singh and Trilok C. Aseri",
title = "Computational Disease Gene Prioritization: An
Appraisal",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "456--465",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0158",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0158;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0158",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 March 2014",
}
@Article{Khan:2014:SPE,
author = "Abdul Arif Khan",
title = "{{\em In Silico\/}} Prediction of \bioname{Escherichia
coli} Proteins Targeting the Host Cell Nucleus, with
Special Reference to Their Role in Colon Cancer
Etiology",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "466--475",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2014",
}
@Article{Anonymous:2014:CJC,
author = "Anonymous",
title = "Correction: {{\booktitle{Journal of Computational
Biology}}}: 2014; {\bf 21}/4:303--319",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "6",
pages = "476--476",
month = jun,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.Cor1",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
note = "See \cite{Kannan:2014:ECP}.",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.Cor1",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2014",
}
@Article{Waldispuhl:2014:SAF,
author = "J{\'e}r{\^o}me Waldisp{\"u}hl and Charles W. O'Donnell
and Sebastian Will and Srinivas Devadas and Rolf
Backofen and Bonnie Berger",
title = "Simultaneous Alignment and Folding of Protein
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "7",
pages = "477--491",
month = jul,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 April 2014",
}
@Article{Haque:2014:ICL,
author = "M. Muksitul Haque and Michael K. Skinner and Lawrence
B. Holder",
title = "Imbalanced Class Learning in Epigenetics",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "7",
pages = "492--507",
month = jul,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 May 2014",
}
@Article{Gamermann:2014:NAP,
author = "Daniel Gamermann and Arnaud Montagud and J. Alberto
Conejero and Javier F. Urchuegu{\'\i}a and Pedro
Fern{\'a}ndez de C{\'o}rdoba",
title = "New Approach for Phylogenetic Tree Recovery Based on
Genome-Scale Metabolic Networks",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "7",
pages = "508--519",
month = jul,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0150",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0150;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0150",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2014",
}
@Article{deMontgolfier:2014:EIG,
author = "Fabien de Montgolfier and Mathieu Raffinot and Irena
Rusu",
title = "Easy Identification of Generalized Common and
Conserved Nested Intervals",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "7",
pages = "520--533",
month = jul,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0146",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0146;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0146",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 March 2014",
}
@Article{Zhukova:2014:KBG,
author = "Anna Zhukova and David James Sherman",
title = "Knowledge-based Generalization of Metabolic Models",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "7",
pages = "534--547",
month = jul,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 April 2014",
}
@Article{Tzou:2014:SSN,
author = "Wen-Shyong Tzou and Ying-Tsang Lo and Tun-Wen Pai and
Chin-Hwa Hu and Chung-Hao Li",
title = "Stochastic Simulation of Notch Signaling Reveals Novel
Factors That Mediate the Differentiation of Neural Stem
Cells",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "7",
pages = "548--567",
month = jul,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 May 2014",
}
@Article{Sharov:2014:CPR,
author = "Alexei A. Sharov and Akira Nishiyama and Yong Qian and
Dawood B. Dudekula and Dan L. Longo and David
Schlessinger and Minoru S. H. Ko",
title = "Chromatin Properties of Regulatory {DNA} Probed by
Manipulation of Transcription Factors",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "8",
pages = "569--577",
month = aug,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2014",
}
@Article{Zheng:2014:DCR,
author = "Yu Zheng and Louxin Zhang",
title = "Are the Duplication Cost and {Robinson--Foulds}
Distance Equivalent?",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "8",
pages = "578--590",
month = aug,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0021",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0021;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0021",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 July 2014",
}
@Article{Han:2014:CS,
author = "Hillary S. W. Han and Thomas J. X. Li and Christian M.
Reidys",
title = "Combinatorics of $ \gamma $-Structures",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "8",
pages = "591--608",
month = aug,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0128",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0128;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0128",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2014",
}
@Article{Zhong:2014:SFA,
author = "Cuncong Zhong and Shaojie Zhang",
title = "Simultaneous Folding of Alternative {RNA} Structures
with Mutual Constraints: an Application to
Next-Generation Sequencing-based {RNA} Structure
Probing",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "8",
pages = "609--621",
month = aug,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0044",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0044;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0044",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 April 2014",
}
@Article{Alexeev:2014:RMA,
author = "Nikita Alexeev and Peter Zograf",
title = "Random Matrix Approach to the Distribution of Genomic
Distance",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "8",
pages = "622--631",
month = aug,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0066;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0066",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 March 2014",
}
@Article{Saravanaraman:2014:NRN,
author = "Ponne Saravanaraman and Raj Kumar Chinnadurai and
Rathanam Boopathy",
title = "A New Role for the Nonpathogenic Nonsynonymous
Single-Nucleotide Polymorphisms of Acetylcholinesterase
in the Treatment of {Alzheimer}'s Disease: a
Computational Study",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "8",
pages = "632--647",
month = aug,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:43 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2014",
}
@Article{Fu:2014:SIR,
author = "Benjamin M. M. Fu and Christian M. Reidys",
title = "Shapes of Interacting {RNA} Complexes",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "9",
pages = "649--664",
month = sep,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0107;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0107",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2014",
}
@Article{Ferraro:2014:PRS,
author = "Maria Brigida Ferraro and Marco Savarese and
Giuseppina {Di Fruscio} and Vincenzo Nigro and Mario
Rosario Guarracino",
title = "Prediction of Rare Single-Nucleotide Causative
Mutations for Muscular Diseases in Pooled
Next-Generation Sequencing Experiments",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "9",
pages = "665--675",
month = sep,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0037",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0037;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0037",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2014",
}
@Article{Irvahn:2014:PSM,
author = "Jan Irvahn and Vladimir N. Minin",
title = "Phylogenetic Stochastic Mapping Without Matrix
Exponentiation",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "9",
pages = "676--690",
month = sep,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0062",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0062;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0062",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2014",
}
@Article{Huo:2014:CTM,
author = "Yunzhang Huo and Ping Ji",
title = "Continuous-Time {Markov} Chain--Based Flux Analysis in
Metabolism",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "9",
pages = "691--698",
month = sep,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 August 2014",
}
@Article{Agapie:2014:PCA,
author = "Alexandru Agapie and Anca Andreica and Marius
Giuclea",
title = "Probabilistic Cellular Automata",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "9",
pages = "699--708",
month = sep,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0074",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0074;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0074",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2014",
}
@Article{Vexler:2014:ECT,
author = "Albert Vexler and Xiwei Chen and Jihnhee Yu",
title = "Evaluations and Comparisons of Treatment Effects Based
on Best Combinations of Biomarkers with Applications to
Biomedical Studies",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "9",
pages = "709--721",
month = sep,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:45 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0097;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0097",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 July 2014",
}
@Article{Voorkamp:2014:MAA,
author = "Josh Voorkamp",
title = "Maximal Acyclic Agreement Forests",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "10",
pages = "723--731",
month = oct,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0093",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0093;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0093",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2014",
}
@Article{Tabb:2014:CED,
author = "Loni Philip Tabb and Wei Zhao and Jingyu Huang and
Gail L. Rosen",
title = "Characterizing the Empirical Distribution of
Prokaryotic Genome $n$-mers in the Presence of
Nullomers",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "10",
pages = "732--740",
month = oct,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2014",
}
@Article{Stepancic:2014:EGS,
author = "{\v{Z}}iva Stepan{\v{c}}i{\v{c}}",
title = "Enhancing {Gibbs} Sampling Method for Motif Finding in
{DNA} with Initial Graph Representation of Sequences",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "10",
pages = "741--752",
month = oct,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 August 2014",
}
@Article{Ram:2014:SAS,
author = "Hari Ram and Alok Kumar and Lebin Thomas and Ved Pal
Singh",
title = "{{\em In silico\/}} Approach to Study Adaptive
Divergence in Nucleotide Composition of the 16S {rRNA}
Gene Among Bacteria Thriving Under Different
Temperature Regimes",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "10",
pages = "753--759",
month = oct,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2014",
}
@Article{Radu:2014:NFE,
author = "Alex Radu and Michael Charleston",
title = "Node Fingerprinting: an Efficient Heuristic for
Aligning Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "10",
pages = "760--770",
month = oct,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2014",
}
@Article{Zhu:2014:ASB,
author = "Peican Zhu and Jie Han",
title = "Asynchronous Stochastic {Boolean} Networks as Gene
Network Models",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "10",
pages = "771--783",
month = oct,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0057",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:47 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0057;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0057",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 June 2014",
}
@Article{Hasegawa:2014:EDA,
author = "Takanori Hasegawa and Tomoya Mori and Rui Yamaguchi
and Seiya Imoto and Satoru Miyano and Tatsuya Akutsu",
title = "An Efficient Data Assimilation Schema for Restoration
and Extension of Gene Regulatory Networks Using
Time-Course Observation Data",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "11",
pages = "785--798",
month = nov,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2014",
}
@Article{Carmel:2014:WCC,
author = "Amir Carmel and Noa Musa-Lempel and Dekel Tsur and
Michal Ziv-Ukelson",
title = "The Worst Case Complexity of Maximum Parsimony",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "11",
pages = "799--808",
month = nov,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0128",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0128;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0128",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 October 2014",
}
@Article{Konopka:2014:ESP,
author = "Bogumil M. Konopka and Tomasz Golda and Ma{\l}gorzata
Kotulska",
title = "Evaluating the Significance of Protein Functional
Similarity Based on Gene Ontology",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "11",
pages = "809--822",
month = nov,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0181;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 September 2014",
}
@Article{Santos:2014:EPF,
author = "Jos{\'e} Santos and Pablo Villot and Martin
Di{\'e}guez",
title = "Emergent Protein Folding Modeled with Evolved Neural
Cellular Automata Using the {$3$D} {HP} Model",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "11",
pages = "823--845",
month = nov,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0077",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0077;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0077",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2014",
}
@Article{Nguyen:2014:WAD,
author = "Nha Nguyen and An Vo and Kyoung-Jae Won",
title = "A Wavelet Approach to Detect Enriched Regions and
Explore Epigenomic Landscapes",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "11",
pages = "846--854",
month = nov,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 July 2014",
}
@Article{Illner:2014:BBS,
author = "Katrin Illner and Christiane Fuchs and Fabian J.
Theis",
title = "{Bayesian} Blind Source Separation for Data with
Network Structure",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "11",
pages = "855--865",
month = nov,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 October 2014",
}
@Article{Yin:2014:NMC,
author = "Changchuan Yin and Xuemeng E. Yin and Jiasong Wang",
title = "A Novel Method for Comparative Analysis of {DNA}
Sequences by {Ramanujan-Fourier} Transform",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "867--879",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0120",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0120;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0120",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 October 2014",
}
@Article{Badr:2014:ISR,
author = "Eman Badr and Lenwood S. Heath",
title = "Identifying Splicing Regulatory Elements with {de
Bruijn} Graphs",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "880--897",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0183",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0183;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0183",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 November 2014",
}
@Article{Kakourou:2014:CAI,
author = "Alexia Kakourou and Werner Vach and Bart Mertens",
title = "Combination Approaches Improve Predictive Performance
of Diagnostic Rules for Mass-Spectrometry Proteomic
Data",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "898--914",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 October 2014",
}
@Article{Chen:2014:ZSR,
author = "William Y. C. Chen and Qiang-Hui Guo and Lisa H. Sun
and Jian Wang",
title = "Zigzag Stacks and $m$-Regular Linear Stacks",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "915--935",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 December 2014",
}
@Article{Maghawry:2014:NPS,
author = "Huda A. Maghawry and Mostafa G. M. Mostafa and Tarek
F. Gharib",
title = "A New Protein Structure Representation for Efficient
Protein Function Prediction",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "936--946",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2014",
}
@Article{Noe:2014:CCS,
author = "Laurent No{\'e} and Donald E. K. Martin",
title = "A Coverage Criterion for Spaced Seeds and Its
Applications to Support Vector Machine String Kernels
and $k$-Mer Distances",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "947--963",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 November 2014",
}
@Article{Liu:2014:WMM,
author = "Lizhen Liu and Xuemin Dai and Hanshi Wang and Wei Song
and Jingli Lu",
title = "A Weighted Multipath Measurement Based on Gene
Ontology for Estimating Gene Products Similarity",
journal = j-J-COMPUT-BIOL,
volume = "21",
number = "12",
pages = "964--974",
month = dec,
year = "2014",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 September 2014",
}
@Article{Yadav:2015:TPR,
author = "Sunita Yadav and D. Swati and Hariharan
Chandrasekharan",
title = "Thiamine Pyrophosphate Riboswitch in Some
Representative Plant Species: a Bioinformatics Study",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "1",
pages = "1--9",
month = jan,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0169",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0169;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0169",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2014",
}
@Article{Persing:2015:SAC,
author = "Adam Persing and Ajay Jasra and Alexandros Beskos and
David Balding and Maria {De Iorio}",
title = "A Simulation Approach for Change-Points on
Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "1",
pages = "10--24",
month = jan,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0218",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0218;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0218",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2014",
}
@Article{Bois:2015:PGR,
author = "Frederic Y. Bois and Ghislaine Gayraud",
title = "Probabilistic Generation of Random Networks Taking
into Account Information on Motifs Occurrence",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "1",
pages = "25--36",
month = jan,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0175",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0175;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0175",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 December 2014",
}
@Article{Chen:2015:PCA,
author = "Derek E. Chen and Darryl L. Willick and Joseph B.
Ruckel and Wely B. Floriano",
title = "Principal Component Analysis of Binding Energies for
Single-Point Mutants of {hT2R16} Bound to an Agonist
Correlate with Experimental Mutant Cell Response",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "1",
pages = "37--53",
month = jan,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0192",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0192;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0192",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 November 2014",
}
@Article{Amaratunga:2015:RBS,
author = "Dhammika Amaratunga and Javier Cabrera and Yung-Seop
Lee",
title = "Resampling-Based Similarity Measures for
High-Dimensional Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "1",
pages = "54--62",
month = jan,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0195",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0195;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0195",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 December 2014",
}
@Article{Gui:2015:IHC,
author = "Tuantuan Gui and Xiao Dong and Rudong Li and Yixue Li
and Zhen Wang",
title = "Identification of Hepatocellular Carcinoma--Related
Genes with a Machine Learning and Network Analysis",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "1",
pages = "63--71",
month = jan,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0122;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2014",
}
@Article{Park:2015:SOG,
author = "Heewon Park and Atushi Niida and Satoru Miyano and
Seiya Imoto",
title = "Sparse Overlapping Group Lasso for Integrative
Multi-Omics Analysis",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "73--84",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 January 2015",
}
@Article{Lu:2015:CSI,
author = "Wei Lu and Takeyuki Tamura and Jiangning Song and
Tatsuya Akutsu",
title = "Computing Smallest Intervention Strategies for
Multiple Metabolic Networks in a {Boolean} Model",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "85--110",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0274",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0274;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0274",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 February 2015",
}
@Article{Chen:2015:FGO,
author = "Quan Chen and Xianghong J. Zhou and Fengzhu Sun",
title = "Finding Genetic Overlaps Among Diseases Based on
Ranked Gene Lists",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "111--123",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 February 2015",
}
@Article{Senter:2015:FAK,
author = "Evan Senter and Peter Clote",
title = "Fast, Approximate Kinetics of {RNA} Folding",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "124--144",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 February 2015",
}
@Article{Rao:2015:CSM,
author = "Aditya Rao and Deepthi P. and C. H. Renumadhavi and M.
Girish Chandra and Rajgopal Srinivasan",
title = "Compressed Sensing Methods for {DNA} Microarrays,
{RNA} Interference, and Metagenomics",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "145--158",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 January 2015",
}
@Article{Guo:2015:DNF,
author = "Xuan Guo and Ning Yu and Xiaojun Ding and Jianxin Wang
and Yi Pan",
title = "{DIME}: a Novel Framework for {{\em {De} Novo\/}}
Metagenomic Sequence Assembly",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "159--177",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0251;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0251",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 February 2015",
}
@Article{Ghavidel:2015:NHM,
author = "Fatemeh Zamanzad Ghavidel and J{\"u}rgen Claesen and
Tomasz Burzykowski",
title = "A Nonhomogeneous Hidden {Markov} Model for Gene
Mapping Based on Next-Generation Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "2",
pages = "178--188",
month = feb,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2015",
}
@Article{Jossinet:2015:P,
author = "Fabrice Jossinet and Yann Ponty and J{\'e}r{\^o}me
Waldisp{\"u}hl",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "3",
pages = "189--189",
month = mar,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.010P",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.010P",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2015",
}
@Article{Saffarian:2015:MAR,
author = "Azadeh Saffarian and Mathieu Giraud and H{\'e}l{\`e}ne
Touzet",
title = "Modeling Alternate {RNA} Structures in Genomic
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "3",
pages = "190--204",
month = mar,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0272",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0272;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0272",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2015",
}
@Article{Bourgeade:2015:CSS,
author = "Laetitia Bourgeade and C{\'e}dric Chauve and Julien
Allali",
title = "Chaining Sequence\slash Structure Seeds for Computing
{RNA} Similarity",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "3",
pages = "205--217",
month = mar,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0283",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0283;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0283",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2015",
}
@Article{Petroni:2015:SSA,
author = "Mattia Petroni and Nikolaj Zimic and Miha Mraz and
Miha Mo{\v{s}}kon",
title = "Stochastic Simulation Algorithm for Gene Regulatory
Networks with Multiple Binding Sites",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "3",
pages = "218--226",
month = mar,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2014",
}
@Article{Matur:2015:AAS,
author = "Meltem G{\"o}lgeli Matur and Johannes M{\"u}ller and
Christina Kuttler and Burkhard A. Hense",
title = "An Approximative Approach for Single Cell Spatial
Modeling of Quorum Sensing",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "3",
pages = "227--235",
month = mar,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0198",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0198;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0198",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 October 2014",
}
@Article{Nguyen:2015:SWE,
author = "Nha Nguyen and An Vo and Inchan Choi and Kyoung-Jae
Won",
title = "A Stationary Wavelet Entropy-Based Clustering Approach
Accurately Predicts Gene Expression",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "3",
pages = "236--249",
month = mar,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0221",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0221;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0221",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 November 2014",
}
@Article{Califano:2015:PRI,
author = "AnDrea Califano and Manolis Kellis and Gustavo
Stolovitzky",
title = "Preface: {RECOMB\slash ISCB Systems Biology,
Regulatory Genomics, and DREAM 2014} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "251--252",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.020P",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.020P",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Joshi:2015:MSN,
author = "Anagha Joshi and Yvonne Beck and Tom Michoel",
title = "Multi-Species Network Inference Improves Gene
Regulatory Network Reconstruction for Early Embryonic
Development in \bioname{Drosophila}",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "253--265",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0290",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0290;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0290",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Ong:2015:SMM,
author = "Edison Ong and Anthony Szedlak and Yunyi Kang and
Peyton Smith and Nicholas Smith and Madison McBride and
Darren Finlay and Kristiina Vuori and James Mason and
Edward D. Ball and Carlo Piermarocchi and Giovanni
Paternostro",
title = "A Scalable Method for Molecular Network Reconstruction
Identifies Properties of Targets and Mutations in Acute
Myeloid Leukemia",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "266--288",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0297",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0297;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0297",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Baur:2015:CCA,
author = "Brittany Baur and Serdar Bozdag",
title = "A Canonical Correlation Analysis-Based Dynamic
{Bayesian} Network Prior to Infer Gene Regulatory
Networks from Multiple Types of Biological Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "289--299",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0296",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0296;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0296",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Li:2015:IGW,
author = "Xueling Li and Min Zhu and Allan R. Brasier and
Andrzej S. Kudlicki",
title = "Inferring Genome-Wide Functional Modulatory Network: a
Case Study on {NF-$ \kappa $B\slash RelA} Transcription
Factor",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "300--312",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0299",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0299;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0299",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Xie:2015:DGP,
author = "Bingqing Xie and Gady Agam and Sandhya Balasubramanian
and Jinbo Xu and T. Conrad Gilliam and Natalia Maltsev
and Daniela B{\"o}rnigen",
title = "Disease Gene Prioritization Using Network and
Feature",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "313--323",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Wise:2015:CID,
author = "Aaron Wise and Ziv Bar-Joseph",
title = "{cDREM}: Inferring Dynamic Combinatorial Gene
Regulation",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "4",
pages = "324--333",
month = apr,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:51:59 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2015",
}
@Article{Sharan:2015:P,
author = "Roded Sharan",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "335--335",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.030P",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.030P",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 April 2015",
}
@Article{Chikhi:2015:RBG,
author = "Rayan Chikhi and Antoine Limasset and Shaun Jackman
and Jared T. Simpson and Paul Medvedev",
title = "On the Representation of {de Bruijn} Graphs",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "336--352",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0160",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0160;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0160",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 January 2015",
}
@Article{Guthals:2015:GFA,
author = "Adrian Guthals and Christina Boucher and Nuno
Bandeira",
title = "The Generating Function Approach for Peptide
Identification in Spectral Networks",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "353--366",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 November 2014",
}
@Article{Leung:2015:IMH,
author = "Henry C. M. Leung and Siu-Ming Yiu and Francis Y. L.
Chin",
title = "{IDBA-MTP}: a Hybrid Metatranscriptomic Assembler
Based on Protein Information",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "367--376",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 December 2014",
}
@Article{Mirarab:2015:PUL,
author = "Siavash Mirarab and Nam Nguyen and Sheng Guo and
Li-San Wang and Junhyong Kim and Tandy Warnow",
title = "{PASTA}: Ultra-Large Multiple Sequence Alignment for
Nucleotide and Amino-Acid Sequences",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "377--386",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 December 2014",
}
@Article{Nguyen:2015:BPG,
author = "Ngan Nguyen and Glenn Hickey and Daniel R. Zerbino and
Brian Raney and Dent Earl and Joel Armstrong and W.
James Kent and David Haussler and Benedict Paten",
title = "Building a {Pan}-Genome Reference for a Population",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "387--401",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0146",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0146;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0146",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2015",
}
@Article{Noto:2015:CCS,
author = "Keith Noto and Saeed Majidi and Andrea G. Edlow and
Heather C. Wick and Diana W. Bianchi and Donna K.
Slonim",
title = "{CSAX}: Characterizing Systematic Anomalies in
{eXpression} Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "402--413",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2015",
}
@Article{Reimers:2015:FFM,
author = "Arne C. Reimers and Frank J. Bruggeman and Brett G.
Olivier and Leen Stougie",
title = "Fast Flux Module Detection Using Matroid Theory",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "414--424",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0141",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0141;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0141",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2015",
}
@Article{Shao:2015:EAC,
author = "Mingfu Shao and Yu Lin and Bernard M. E. Moret",
title = "An Exact Algorithm to Compute the Double-Cut-and-Join
Distance for Genomes with Duplicate Genes",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "425--435",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 December 2014",
}
@Article{Xu:2015:GCA,
author = "Shutan Xu and Shuxue Zou and Lincong Wang",
title = "A Geometric Clustering Algorithm with Applications to
Structural Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "436--450",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0162",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0162;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0162",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 December 2014",
}
@Article{Yang:2015:SHC,
author = "Wen-Yun Yang and Farhad Hormozdiari and Eleazar Eskin
and Bogdan Pasaniuc",
title = "A Spatial Haplotype Copying Model with Applications to
Genotype Imputation",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "5",
pages = "451--462",
month = may,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 December 2014",
}
@Article{Chitsaz:2015:ELR,
author = "Hamidreza Chitsaz and Mohammad Aminisharifabad",
title = "Exact Learning of {RNA} Energy Parameters From
Structure",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "463--473",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0164",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0164;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0164",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2015",
}
@Article{Kamisetty:2015:LSD,
author = "Hetunandan Kamisetty and Bornika Ghosh and Christopher
James Langmead and Chris Bailey-Kellogg",
title = "Learning Sequence Determinants of Protein:Protein
Interaction Specificity with Sparse Graphical Models",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "474--486",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0289",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0289;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0289",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 May 2015",
}
@Article{Konagurthu:2015:SSL,
author = "Arun S. Konagurthu and Parthan Kasarapu and Lloyd
Allison and James H. Collier and Arthur M. Lesk",
title = "On Sufficient Statistics of Least-Squares
Superposition of Vector Sets",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "487--497",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0154;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2015",
}
@Article{Patterson:2015:WWH,
author = "Murray Patterson and Tobias Marschall and Nadia
Pisanti and Leo van Iersel and Leen Stougie and Gunnar
W. Klau and Alexander Sch{\"o}nhuth",
title = "{WhatsHap}: Weighted Haplotype Assembly for
Future-Generation Sequencing Reads",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "498--509",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 February 2015",
}
@Article{Raphael:2015:SIC,
author = "Benjamin J. Raphael and Fabio Vandin",
title = "Simultaneous Inference of Cancer Pathways and Tumor
Progression from Cross-Sectional Mutation Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "510--527",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 March 2015",
}
@Article{Safonova:2015:DAH,
author = "Yana Safonova and Anton Bankevich and Pavel A.
Pevzner",
title = "{dipSPAdes}: Assembler for Highly Polymorphic Diploid
Genomes",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "528--545",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 March 2015",
}
@Article{Wang:2015:CPF,
author = "Hua Wang and Heng Huang and Chris Ding",
title = "Correlated Protein Function Prediction via
Maximization of Data-Knowledge Consistency",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "546--562",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 April 2015",
}
@Article{Wang:2015:GGI,
author = "Zhanyong Wang and Jae Hoon Sul and Sagi Snir and Jose
A. Lozano and Eleazar Eskin",
title = "Gene--Gene Interactions Detection Using a Two-stage
Model",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "563--576",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 April 2015",
}
@Article{Zakov:2015:RBF,
author = "Shay Zakov and Vineet Bafna",
title = "Reconstructing Breakage Fusion Bridge Architectures
Using Noisy Copy Numbers",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "577--594",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0166",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0166;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0166",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 May 2015",
}
@Article{Zitnik:2015:DIE,
author = "Marinka {\v{Z}}itnik and Bla{\v{z}} Zupan",
title = "Data Imputation in Epistatic {MAPs} by Network-Guided
Matrix Completion",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "6",
pages = "595--608",
month = jun,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0158",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0158;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0158",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 February 2015",
}
@Article{Guo:2015:NFP,
author = "Yuzhen Guo",
title = "The Noncompacted Folding of Proteins by Modified
Elastic Net Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "609--618",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2012.0290",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2012.0290;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2012.0290",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 June 2015",
}
@Article{Muller:2015:CRS,
author = "Robert M{\"u}ller and Markus E. Nebel",
title = "Combinatorics of {RNA} Secondary Structures with Base
Triples",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "619--648",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 June 2015",
}
@Article{Costa:2015:ETS,
author = "Jose M. J. Costa and Helcio R. B. Orlande and Haroldo
F. Campos Velho and Suani T. R. de Pinho and George S.
Dulikravich and Renato M. Cotta and Silvio H. da Cunha
Neto",
title = "Estimation of Tumor Size Evolution Using Particle
Filters",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "649--665",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 May 2015",
}
@Article{Wei:2015:DPA,
author = "Zhexue Wei and Daming Zhu and Lusheng Wang",
title = "A Dynamic Programming Algorithm For (1,2)-Exemplar
Breakpoint Distance",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "666--676",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0200",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0200;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0200",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 June 2015",
}
@Article{Chang:2015:VCF,
author = "Huilan Chang and Yi-Chang Chiu and Yi-Lin Tsai",
title = "A Variation of Cover-Free Families and Its
Applications",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "677--686",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0222",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0222;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0222",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2015",
}
@Article{Radu:2015:NHS,
author = "Alex Radu and Michael Charleston",
title = "Node Handprinting: a Scalable and Accurate Algorithm
for Aligning Multiple Biological Networks",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "687--697",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0247",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0247;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0247",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2015",
}
@Article{Kaiser:2015:NAE,
author = "Florian Kaiser and Alexander Eisold and Dirk Labudde",
title = "A Novel Algorithm for Enhanced Structural Motif
Matching in Proteins",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "7",
pages = "698--713",
month = jul,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0263",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:06 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0263;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0263",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2015",
}
@Article{Simmons:2015:DWD,
author = "Sean Simmons and Jian Peng and Jadwiga Bienkowska and
Bonnie Berger",
title = "Discovering What Dimensionality Reduction Really Tells
Us About {RNA-Seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "8",
pages = "715--728",
month = aug,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0085",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0085;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0085",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 June 2015",
}
@Article{Zornig:2015:RSI,
author = "Peter Z{\"o}rnig",
title = "Reduced-Size Integer Linear Programming Models for
String Selection Problems: Application to the Farthest
String Problem",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "8",
pages = "729--742",
month = aug,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0265;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0265",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 December 2014",
}
@Article{Koskinen:2015:IDC,
author = "Kaisa Koskinen and Petri Auvinen and K. Johanna
Bj{\"o}rkroth and Jenni Hultman",
title = "Inconsistent Denoising and Clustering Algorithms for
Amplicon Sequence Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "8",
pages = "743--751",
month = aug,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0268",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0268;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0268",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 December 2014",
}
@Article{Huang:2015:MRR,
author = "Chia-Hui Huang",
title = "Medical Reasoning with Rough-Set Influence Diagrams",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "8",
pages = "752--764",
month = aug,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0293",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0293;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0293",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 April 2015",
}
@Article{Sun:2015:MSM,
author = "Miao Sun and Dejian Lai and Li Zhang and Xuelin
Huang",
title = "Modified {SuperCurve} Method for Analysis of
Reverse-Phase Protein Array Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "8",
pages = "765--769",
month = aug,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 June 2015",
}
@Article{Serang:2015:FNM,
author = "Oliver Serang",
title = "A Fast Numerical Method for Max-Convolution and the
Application to Efficient Max-Product Inference in
{Bayesian} Networks",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "8",
pages = "770--783",
month = aug,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2015",
}
@Article{He:2015:CSB,
author = "Jing He and Amarda Shehu and Nurit Haspel and Brian
Chen",
title = "The 7th Computational Structural Bioinformatics
Workshop",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "785--786",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.28999.jh",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.28999.jh",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 September 2015",
}
@Article{Dong:2015:CAS,
author = "Hui Dong and Jin Seob Kim and Gregory S. Chirikjian",
title = "Computational Analysis of {SAXS} Data Acquisition",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "787--805",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 August 2015",
}
@Article{Hashmi:2015:IIM,
author = "Irina Hashmi and Amarda Shehu",
title = "{idDock+}: Integrating Machine Learning in
Probabilistic Search for Protein--Protein Docking",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "806--822",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 July 2015",
}
@Article{Yeh:2015:DDI,
author = "Hsin-Yi (Cindy) Yeh and Aaron Lindsey and Chih-Peng Wu
and Shawna Thomas and Nancy M. Amato",
title = "Decoy Database Improvement for Protein Folding",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "823--836",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0116",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0116;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0116",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2015",
}
@Article{Biswas:2015:DPA,
author = "Abhishek Biswas and Desh Ranjan and Mohammad Zubair
and Jing He",
title = "A Dynamic Programming Algorithm for Finding the
Optimal Placement of a Secondary Structure Topology in
{Cryo-EM} Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "837--843",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0120",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0120;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0120",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 August 2015",
}
@Article{Clausen:2015:DDE,
author = "Rudy Clausen and Amarda Shehu",
title = "A Data-Driven Evolutionary Algorithm for Mapping
Multibasin Protein Energy Landscapes",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "844--860",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0107;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0107",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 July 2015",
}
@Article{Guo:2015:CSR,
author = "Ziyi Guo and Brian Yuan Chen",
title = "Conformational Sampling Reveals Amino Acids with a
Steric Influence on Specificity",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "861--875",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0117;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0117",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 September 2015",
}
@Article{Zhou:2015:DDA,
author = "Ping Zhou and Ning Zhang and Ruth Nussinov and Buyong
Ma",
title = "Defining the Domain Arrangement of the Mammalian
Target of {Rapamycin} Complex Component {Rictor}
Protein",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "876--886",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2015",
}
@Article{Xia:2015:MTS,
author = "Kelin Xia and Zhixiong Zhao and Guo-Wei Wei",
title = "Multiresolution Topological Simplification",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "887--891",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0104",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0104;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0104",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 July 2015",
}
@Article{Akbal-Delibas:2015:APD,
author = "Bahar Akbal-Delibas and Marc Pomplun and Nurit
Haspel",
title = "Accurate Prediction of Docked Protein Structure
Similarity",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "9",
pages = "892--904",
month = sep,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:10 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 September 2015",
}
@Article{Baran:2015:NRB,
author = "Yael Baran and Eran Halperin",
title = "A Note on the Relations Between Spatio-Genetic
Models",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "10",
pages = "905--917",
month = oct,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0080",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0080;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0080",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 June 2015",
}
@Article{Disanto:2015:CHL,
author = "Filippo Disanto and Noah A. Rosenberg",
title = "Coalescent Histories for Lodgepole Species Trees",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "10",
pages = "918--929",
month = oct,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0015",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0015;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0015",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 May 2015",
}
@Article{Pragman:2015:MDT,
author = "Alexa Pragman and Richard Issacson and Christine Wendt
and Cavan Reilly",
title = "A Method for Determining Taxonomical Contributions to
Group Differences in Microbiomic Investigations",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "10",
pages = "930--939",
month = oct,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0021",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0021;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0021",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 May 2015",
}
@Article{Wallace:2015:ASC,
author = "Tim Wallace and Ali Sekmen and Xiaofei Wang",
title = "Application of Subspace Clustering in {DNA} Sequence
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "10",
pages = "940--952",
month = oct,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2015",
}
@Article{Faria:2015:RAP,
author = "Alexandre Wagner Chagas Faria and Alisson Marques da
Silva and Thiago de Souza Rodrigues and Marcelo Azevedo
Costa and Antonio Padua Braga",
title = "A Ranking Approach for Probe Selection and
Classification of Microarray Data with Artificial
Neural Networks",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "10",
pages = "953--961",
month = oct,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 September 2015",
}
@Article{Li:2015:HPG,
author = "Bo Li and Xianfang Zheng and Chuancui Hu and Yunxia
Cao",
title = "Human Papillomavirus Genome-Wide Identification of
{T}-Cell Epitopes for Peptide Vaccine Development
Against Cervical Cancer: an Integration of
Computational Analysis and Experimental Assay",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "10",
pages = "962--974",
month = oct,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0287",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:13 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0287;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0287",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 September 2015",
}
@Article{Lu:2015:EAC,
author = "Chin Lung Lu",
title = "An Efficient Algorithm for the Contig Ordering Problem
under Algebraic Rearrangement Distance",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "975--987",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 August 2015",
}
@Article{Chen:2015:CAM,
author = "Ping Chen and Xuelin Huang",
title = "Comparison of Analytic Methods for Quantitative
Real-Time Polymerase Chain Reaction Data",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "988--996",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 July 2015",
}
@Article{OHare:2015:IHD,
author = "Anthony O'Hare",
title = "Inference in High-Dimensional Parameter Space",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "997--1004",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0086",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0086;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0086",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2015",
}
@Article{Sakhanenko:2015:BDA,
author = "Nikita A. Sakhanenko and David J. Galas",
title = "Biological Data Analysis as an Information Theory
Problem: Multivariable Dependence Measures and the
Shadows Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "1005--1024",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0051;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0051",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 September 2015",
}
@Article{Jasra:2015:BID,
author = "Ajay Jasra and Adam Persing and Alexandros Beskos and
Kari Heine and Maria {De Iorio}",
title = "{Bayesian} Inference for Duplication--Mutation with
Complementarity Network Models",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "1025--1033",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0072",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0072;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0072",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 September 2015",
}
@Article{Kim:2015:SSS,
author = "Sera Kim and Kyeongjun Lee and Hokeun Sun",
title = "Statistical Selection Strategy for Risk and Protective
Rare Variants Associated with Complex Traits",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "1034--1043",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0091;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0091",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 October 2015",
}
@Article{Cunha:2015:FAA,
author = "Lu{\'\i}s Felipe I. Cunha and Luis Antonio B. Kowada
and Rodrigo de A. Hausen and Celina M. H. de
Figueiredo",
title = "A Faster 1.375-Approximation Algorithm for Sorting by
Transpositions*",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "11",
pages = "1044--1056",
month = nov,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0298",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:15 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0298;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0298",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 September 2015",
}
@Article{Frasca:2015:UUA,
author = "Marco Frasca and Alberto Bertoni and Giorgio
Valentini",
title = "{UNIPred}: Unbalance-Aware Network Integration and
Prediction of Protein Functions",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1057--1074",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0110",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0110;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0110",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 September 2015",
}
@Article{Soliman:2015:DMM,
author = "Ahmed T. Soliman and Tao Meng and Shu-Ching Chen and
S. S. Iyengar and Puneeth Iyengar and John Yordy and
Mei-Ling Shyu",
title = "Driver Missense Mutation Identification Using Feature
Selection and Model Fusion",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1075--1085",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0110",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0110;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0110",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 September 2015",
}
@Article{Tran:2015:NMP,
author = "Tuan-Anh Tran and Nam Tri Vo and Hoang Duc Nguyen and
Bao The Pham",
title = "A Novel Method to Predict Highly Expressed Genes Based
on Radius Clustering and Relative Synonymous Codon
Usage",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1086--1096",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0121;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0121",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 November 2015",
}
@Article{Kang:2015:PAD,
author = "Kyoung-Tak Kang and Sung-Hwan Kim and Juhyun Son and
Young Han Lee and Heoung-Jae Chun",
title = "Probabilistic Approach for Determining the Material
Properties of Meniscal Attachments {{\em In Vivo\/}}
Using Magnetic Resonance Imaging and a Finite Element
Model",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1097--1107",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0126",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0126;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0126",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 September 2015",
}
@Article{Niu:2015:DTI,
author = "Shu-Yuan Niu and Ming-Yuan Xin and Jian Luo and
Ming-Yao Liu and Zhen-Ran Jiang",
title = "{DSEP}: a Tool Implementing Novel Method to Predict
Side Effects of Drugs",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1108--1117",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2015",
}
@Article{Al-Okaily:2015:ETT,
author = "Anas Al-Okaily",
title = "Error Tree: a Tree Structure for {Hamming} and Edit
Distances and Wildcards Matching",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1118--1128",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0132",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0132;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0132",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 September 2015",
}
@Article{Chernomor:2015:CCT,
author = "Olga Chernomor and Bui Quang Minh and Arndt von
Haeseler",
title = "Consequences of Common Topological Rearrangements for
Partition Trees in Phylogenomic Inference",
journal = j-J-COMPUT-BIOL,
volume = "22",
number = "12",
pages = "1129--1142",
month = dec,
year = "2015",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0146",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:17 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0146;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0146",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 October 2015",
}
@Article{Deng:2016:DTE,
author = "Feilong Deng and Shi-Yi Chen",
title = "{dbHT-Trans}: an Efficient Tool for Filtering the
Protein-Encoding Transcripts Assembled by {RNA-Seq}
According to Search for Homologous Proteins",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "1--9",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2015",
}
@Article{Aridhi:2016:PIR,
author = "Sabeur Aridhi and Ha{\"\i}tham Sghaier and Manel
Zoghlami and Mondher Maddouri and Engelbert Mephu
Nguifo",
title = "Prediction of Ionizing Radiation Resistance in
Bacteria Using a Multiple Instance Learning Model",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "10--20",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0134",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0134;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0134",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2015",
}
@Article{Girdlestone:2016:DWA,
author = "Christopher Girdlestone and Steven Hayward",
title = "The {DynDom3D Webserver} for the Analysis of Domain
Movements in Multimeric Proteins",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "21--26",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 November 2015",
}
@Article{Camilo:2016:HOO,
author = "Cesar M. Camilo and Gustavo M. A. Lima and Fernando V.
Maluf and Rafael V. C. Guido and Igor Polikarpov",
title = "{HTP-OligoDesigner}: an Online Primer Design Tool for
High-Throughput Gene Cloning and Site-Directed
Mutagenesis",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "27--29",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 November 2015",
}
@Article{Vandin:2016:SCC,
author = "Fabio Vandin and Benjamin J. Raphael and Eli Upfal",
title = "On the Sample Complexity of Cancer Pathways
Identification",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "30--41",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 December 2015",
}
@Article{Hsiao:2016:SAF,
author = "Ya-Chun Hsiao and Li-Yu Daisy Liu",
title = "A Stepwise Approach of Finding Dependent Variables via
Coefficient of Intrinsic Dependence",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "42--55",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0150",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0150;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0150",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 December 2015",
}
@Article{Hu:2016:CPT,
author = "Yucheng Hu and John S. Lowengrub",
title = "Collective Properties of a Transcription Initiation
Model Under Varying Environment",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "1",
pages = "56--66",
month = jan,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 December 2015",
}
@Article{Orenstein:2016:EDC,
author = "Yaron Orenstein and Bonnie Berger",
title = "Efficient Design of Compact Unstructured {RNA}
Libraries Covering All $k$-mers",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "2",
pages = "67--79",
month = feb,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0179;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0179",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 December 2015",
}
@Article{Rohani:2016:RSW,
author = "Leyla Rohani and Derrick J. Morton and Xiao-Qian Wang
and Jaideep Chaudhary",
title = "Relative Stability of Wild-Type and Mutant p53 Core
Domain: a Molecular Dynamic Study",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "2",
pages = "80--89",
month = feb,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2015",
}
@Article{Pepe:2016:CPP,
author = "Daniele Pepe and Jin Hwan Do",
title = "Comparison of Perturbed Pathways in Two Different Cell
Models for {Parkinson}'s Disease with Structural
Equation Model",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "2",
pages = "90--101",
month = feb,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2015",
}
@Article{Peng:2016:ZIB,
author = "Xiaoling Peng and Gang Li and Zhenqiu Liu",
title = "Zero-Inflated Beta Regression for Differential
Abundance Analysis with Metagenomics Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "2",
pages = "102--110",
month = feb,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2015",
}
@Article{Zhu:2016:MCU,
author = "Xiujun (Sylvia) Zhu and Monnie McGee",
title = "Metagenomic Classification Using an Abstraction
Augmented {Markov} Model",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "2",
pages = "111--122",
month = feb,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0141",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0141;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0141",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 November 2015",
}
@Article{Li:2016:MPL,
author = "Haiou Li and Lu Sun and Sheng Luo and Xiaoyan Xia and
Qiang Lyu",
title = "Modeling Protein Loop Structure by Cyclic Coordinate
Descent-based Approach",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "2",
pages = "123--136",
month = feb,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2015",
}
@Article{Bonizzoni:2016:LEM,
author = "Paola Bonizzoni and Gianluca Della Vedova and Yuri
Pirola and Marco Previtali and Raffaella Rizzi",
title = "{LSG}: an External-Memory Tool to Compute String
Graphs for Next-Generation Sequencing Data Assembly",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "137--149",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2016",
}
@Article{Avdeyev:2016:RAG,
author = "Pavel Avdeyev and Shuai Jiang and Sergey Aganezov and
Fei Hu and Max A. Alekseyev",
title = "Reconstruction of Ancestral Genomes in Presence of
Gene Gain and Loss",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "150--164",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0160",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0160;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0160",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 February 2016",
}
@Article{Smoly:2016:ART,
author = "Ilan Smoly and Amir Carmel and Yonat Shemer-Avni and
Esti Yeger-Lotem and Michal Ziv-Ukelson",
title = "Algorithms for Regular Tree Grammar Network Search and
Their Application to Mining Human--viral Infection
Patterns",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "165--179",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0168",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0168;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0168",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2016",
}
@Article{Chakrabarty:2016:DCD,
author = "Deeparnab Chakrabarty and Sampath Kannan and Kevin
Tian",
title = "Detecting Character Dependencies in Stochastic Models
of Evolution",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "180--191",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0099",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0099;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0099",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2016",
}
@Article{Liu:2016:SIC,
author = "Zhenqiu Liu and Shili Lin and Nan Deng and Dermot P.
B. McGovern and Steven Piantadosi",
title = "Sparse Inverse Covariance Estimation with {$L$}$_0$
Penalty for Network Construction with Omics Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "192--202",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 February 2016",
}
@Article{Canzar:2016:RCP,
author = "Stefan Canzar and Khaled Elbassioni and Mitchell Jones
and Juli{\'a}n Mestre",
title = "Resolving Conflicting Predictions from Multimapping
Reads",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "203--217",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0164",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0164;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0164",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2016",
}
@Article{Drinkwater:2016:RRA,
author = "Benjamin Drinkwater and Michael A. Charleston",
title = "{RASCAL}: a Randomized Approach for Coevolutionary
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "3",
pages = "218--227",
month = mar,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0111",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0111;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0111",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 February 2016",
}
@Article{Chen:2016:BIM,
author = "Shi-Yi Chen and Feilong Deng and Ying Huang and Xianbo
Jia and Yi-Ping Liu and Song-Jia Lai",
title = "{bioOTU}: an Improved Method for Simultaneous
Taxonomic Assignments and Operational Taxonomic Units
Clustering of 16s {rRNA} Gene Sequences",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "229--238",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0214",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0214;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0214",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 March 2016",
}
@Article{Anjum:2016:IDE,
author = "Arfa Anjum and Seema Jaggi and Eldho Varghese and
Shwetank Lall and Arpan Bhowmik and Anil Rai",
title = "Identification of Differentially Expressed Genes in
{RNA-seq} Data of \bioname{Arabidopsis thaliana}: a
Compound Distribution Approach",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "239--247",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0205",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0205;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0205",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 March 2016",
}
@Article{Perez:2016:CPA,
author = "Nelson P{\'e}rez and Miguel Gutierrez and Nelson
Vera",
title = "Computational Performance Assessment of $k$-mer
Counting Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "248--255",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2016",
}
@Article{Sarr:2016:VAR,
author = "Abdoulaye Sarr and Anya D{\'e}silles and Alexandra
Fronville and Vincent Rodin",
title = "A Viability Approach for Robustness Measurement,
Organizational Autopoiesis, and Cell Turnover in a
Multicellular System",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "256--269",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0187",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0187;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0187",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 March 2016",
}
@Article{Mier:2016:FFW,
author = "Pablo Mier and Miguel A. Andrade-Navarro",
title = "{FastaHerder2}: Four Ways to Research Protein Function
and Evolution with Clustering and Clustered Databases",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "270--278",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0191",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0191;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0191",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 February 2016",
}
@Article{Laimighofer:2016:UPF,
author = "Michael Laimighofer and Jan Krumsiek and Florian
Buettner and Fabian J. Theis",
title = "Unbiased Prediction and Feature Selection in
High-Dimensional Survival Regression",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "279--290",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0192",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0192;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0192",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2016",
}
@Article{Lobo:2016:MMC,
author = "Daniel Lobo and Jennifer Hammelman and Michael Levin",
title = "{MoCha}: Molecular Characterization of Unknown
Pathways",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "4",
pages = "291--297",
month = apr,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0211",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0211;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0211",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 March 2016",
}
@Article{Przytycka:2016:P,
author = "Teresa Przytycka",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "299--299",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.29001.tp",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.29001.tp",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2016",
}
@Article{Gong:2016:CSE,
author = "Huichao Gong and Sai Zhang and Jiangdian Wang and
Haipeng Gong and Jianyang Zeng",
title = "Constructing Structure Ensembles of Intrinsically
Disordered Proteins from Chemical Shift Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "300--310",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0184",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0184;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0184",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2016",
}
@Article{Hallen:2016:CCO,
author = "Mark A. Hallen and Bruce R. Donald",
title = "comets (Constrained Optimization of Multistate
Energies by Tree Search): a Provable and Efficient
Protein Design Algorithm to Optimize Binding Affinity
and Specificity with Respect to Sequence",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "311--321",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 January 2016",
}
@Article{Li:2016:DFS,
author = "Yifeng Li and Chih-Yu Chen and Wyeth W. Wasserman",
title = "Deep Feature Selection: Theory and Application to
Identify Enhancers and Promoters",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "322--336",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 January 2016",
}
@Article{Shao:2016:FEA,
author = "Mingfu Shao and Bernard M. E. Moret",
title = "A Fast and Exact Algorithm for the Exemplar Breakpoint
Distance",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "337--346",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 March 2016",
}
@Article{Salmela:2016:GFE,
author = "Leena Salmela and Kristoffer Sahlin and Veli
M{\"a}kinen and Alexandru I. Tomescu",
title = "Gap Filling as Exact Path Length Problem",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "347--361",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 March 2016",
}
@Article{Fonseca:2016:PRN,
author = "Rasmus Fonseca and Henry van den Bedem and Julie
Bernauer",
title = "Probing {RNA} Native Conformational Ensembles with
Structural Constraints",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "362--371",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0201;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0201",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 March 2016",
}
@Article{Lee:2016:ENR,
author = "Seunghak Lee and Aur{\'e}lie Lozano and Prabhanjan
Kambadur and Eric P. Xing",
title = "An Efficient Nonlinear Regression Approach for
Genome-wide Detection of Marginal and Interacting
Genetic Variations",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "372--389",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0202",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0202;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0202",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2016",
}
@Article{Mazza:2016:FAM,
author = "Arnon Mazza and Allon Wagner and Eytan Ruppin and
Roded Sharan",
title = "Functional Alignment of Metabolic Networks",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "390--399",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0203",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0203;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0203",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 January 2016",
}
@Article{Leelananda:2016:PDS,
author = "Sumudu P. Leelananda and Robert L. Jernigan and
Andrzej Kloczkowski",
title = "Predicting Designability of Small Proteins from Graph
Features of Contact Maps",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "5",
pages = "400--411",
month = may,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2016",
}
@Article{Jou:2016:BNP,
author = "Jonathan D. Jou and Swati Jain and Ivelin S. Georgiev
and Bruce R. Donald",
title = "{BWM*}: a Novel, Provable, Ensemble-based Dynamic
Programming Algorithm for Sparse Approximations of
Computational Protein Design",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "413--424",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0194",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0194;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0194",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2016",
}
@Article{Sefer:2016:DEC,
author = "Emre Sefer and Geet Duggal and Carl Kingsford",
title = "Deconvolution of Ensemble Chromatin Interaction Data
Reveals the Latent Mixing Structures in Cell
Subpopulations",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "425--438",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0210",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0210;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0210",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 June 2016",
}
@Article{Zhou:2016:CPD,
author = "Yichao Zhou and Yuexin Wu and Jianyang Zeng",
title = "Computational Protein Design Using {AND/OR}
Branch-and-Bound Search",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "439--451",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0212",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0212;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0212",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2016",
}
@Article{Thankachan:2016:APM,
author = "Sharma V. Thankachan and Sriram P. Chockalingam and
Yongchao Liu and Alberto Apostolico and Srinivas
Aluru",
title = "{ALFRED}: a Practical Method for Alignment-Free
Distance Computation",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "452--460",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0217;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2016",
}
@Article{Ben-Bassat:2016:CDS,
author = "Ilan Ben-Bassat and Benny Chor",
title = "{CRISPR} Detection From Short Reads Using Partial
Overlap Graphs",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "461--471",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0226",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0226;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0226",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2016",
}
@Article{Thankachan:2016:PEA,
author = "Sharma V. Thankachan and Alberto Apostolico and
Srinivas Aluru",
title = "A Provably Efficient Algorithm for the $k$-Mismatch
Average Common Substring Problem",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "472--482",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0235",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0235;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0235",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2016",
}
@Article{Bonissone:2016:ICU,
author = "Stefano R. Bonissone and Pavel A. Pevzner",
title = "Immunoglobulin Classification Using the Colored
Antibody Graph",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "483--494",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 May 2016",
}
@Article{Yang:2016:RRI,
author = "Shuo Yang and Shai Carmi and Itsik Pe'er",
title = "Rapidly Registering Identity-by-Descent Across
Ancestral Recombination Graphs",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "495--507",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0016",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0016;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0016",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2016",
}
@Article{Manescu:2016:SLA,
author = "David Manescu and Uri Keich",
title = "A Symmetric Length-Aware Enrichment Test",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "508--525",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0038",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0038;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0038",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2016",
}
@Article{Biswas:2016:LMI,
author = "Surojit Biswas and Meredith Mcdonald and Derek S.
Lundberg and Jeffery L. Dangl and Vladimir Jojic",
title = "Learning Microbial Interaction Networks from
Metagenomic Count Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "6",
pages = "526--535",
month = jun,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0061",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0061;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0061",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 June 2016",
}
@Article{Chen:2016:BIB,
author = "Zhi-Zhong Chen and Fei Deng and Chao Shen and Yiji
Wang and Lusheng Wang",
title = "Better {ILP-Based} Approaches to Haplotype Assembly",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "537--552",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0035",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0035;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0035",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 June 2016",
}
@Article{Zhang:2016:TBP,
author = "Louxin Zhang",
title = "On Tree-Based Phylogenetic Networks",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "553--565",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0228;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0228",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 May 2016",
}
@Article{Chen:2016:EFR,
author = "Jiawen Chen and Zhong-Ru Xie and Yinghao Wu",
title = "Elucidating the Functional Roles of Spatial
Organization in Cross-Membrane Signal Transduction by a
Hybrid Simulation Method",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "566--584",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 March 2016",
}
@Article{Guan:2016:EPE,
author = "Boxin Guan and Changsheng Zhang and Jiaxu Ning",
title = "{EDGA}: a Population Evolution Direction-Guided
Genetic Algorithm for Protein--Ligand Docking",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "585--596",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0190",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0190;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0190",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2016",
}
@Article{Wang:2016:CWB,
author = "Yi Wang and Shuangshuang Wang and Dongjie Zhou and
Shuai Yang and Yongchao Xu and Chao Yang and Long
Yang",
title = "{CsSNP}: a {Web}-Based Tool for the Detecting of
Comparative Segments {SNPs}",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "597--602",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0215;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 June 2016",
}
@Article{Serra:2016:SMB,
author = "Fabrizio Serra and Chiara Romualdi and Federico
Fogolari",
title = "Similarity Measures Based on the Overlap of Ranked
Genes Are Effective for Comparison and Classification
of Microarray Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "603--614",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0057",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0057;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0057",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2016",
}
@Article{Al-Okaily:2016:MSE,
author = "Anas Al-Okaily and Chun-Hsi Huang",
title = "{ET-Motif}: Solving the Exact $ (l, d)$-Planted Motif
Problem Using Error Tree Structure",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "7",
pages = "615--623",
month = jul,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0238",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0238;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0238",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2016",
}
@Article{Jindalertudomdee:2016:EMS,
author = "Jira Jindalertudomdee and Morihiro Hayashida and
Tatsuya Akutsu",
title = "Enumeration Method for Structural Isomers Containing
User-Defined Structures Based on Breadth-First Search
Approach",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "625--640",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0056;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0056",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 June 2016",
}
@Article{Goz:2016:EDE,
author = "Eli Goz and Tamir Tuller",
title = "Evidence of a Direct Evolutionary Selection for Strong
Folding and Mutational Robustness Within {HIV} Coding
Regions",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "641--650",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 June 2016",
}
@Article{More:2016:IDP,
author = "Ravi P. More and Hemant J. Purohit",
title = "The Identification of Discriminating Patterns from 16S
{rRNA} Gene to Generate Signature for Bacillus Genus",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "651--661",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0002;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2016",
}
@Article{Traykov:2016:NHA,
author = "Metodi Traykov and Slav Angelov and Nicola Yanev",
title = "A New Heuristic Algorithm for Protein Folding in the
{HP} Model",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "662--668",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0015",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0015;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0015",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2016",
}
@Article{Chen:2016:CPN,
author = "Duo Chen and Jiasong Wang and Ming Yan and Forrest
Sheng Bao",
title = "A Complex Prime Numerical Representation of Amino
Acids for Protein Function Comparison",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "669--677",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2016",
}
@Article{deAndres-Galiana:2016:DBR,
author = "Enrique J. deAndr{\'e}s-Galiana and Juan Luis
Fern{\'a}ndez-Mart{\'\i}nez and Stephen T. Sonis",
title = "Design of Biomedical Robots for Phenotype Prediction
Problems",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "678--692",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 June 2016",
}
@Article{Wang:2016:IMN,
author = "Yuandi Wang and Jinyu Cong",
title = "An Improved Model of Nonuniform Coleochaete Cell
Division",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "8",
pages = "693--709",
month = aug,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0021",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:34 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0021;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0021",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 June 2016",
}
@Article{Pirogov:2016:RPN,
author = "Sergey Pirogov and Alexander Rybko and Anastasia
Kalinina and Mikhail Gelfand",
title = "Recombination Processes and Nonlinear {Markov}
Chains",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "711--717",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0051;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0051",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2016",
}
@Article{Bonizzoni:2016:MEC,
author = "Paola Bonizzoni and Riccardo Dondi and Gunnar W. Klau
and Yuri Pirola and Nadia Pisanti and Simone Zaccaria",
title = "On the Minimum Error Correction Problem for Haplotype
Assembly in Diploid and Polyploid Genomes",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "718--736",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0220",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0220;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0220",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 June 2016",
}
@Article{Pan:2016:CCB,
author = "Yuchao Pan and Yuxi Dong and Jingtian Zhou and Mark
Hallen and Bruce R. Donald and Jianyang Zeng and Wei
Xu",
title = "{cOSPREY}: a Cloud-Based Distributed Algorithm for
Large-Scale Computational Protein Design",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "737--749",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0234",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0234;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0234",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2016",
}
@Article{Alic:2016:MHB,
author = "Andy S. Alic and Ignacio Blanquer",
title = "{MuffinInfo}: {HTML5-Based} Statistics Extractor from
Next-Generation Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "750--755",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 September 2016",
}
@Article{Gartner:2016:IVC,
author = "Kerstin G{\"a}rtner and Andreas Futschik",
title = "Improved Versions of Common Estimators of the
Recombination Rate",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "756--768",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0039",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0039;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0039",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 July 2016",
}
@Article{Fomin:2016:SARa,
author = "Eduard Fomin",
title = "A Simple Approach to the Reconstruction of a Set of
Points from the Multiset of $ n^2 $ Pairwise Distances
in $ n^2 $ Steps for the Sequencing Problem: {I}.
{Theory}",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "769--775",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0044",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0044;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0044",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 June 2016",
}
@Article{McGrane:2016:BNE,
author = "Martin McGrane and Michael A. Charleston",
title = "Biological Network Edit Distance",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "9",
pages = "776--788",
month = sep,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0062",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:36 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0062;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0062",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 June 2016",
}
@Article{OReilly:2016:EEO,
author = "Eliza O'Reilly and Fran{\c{c}}ois Baccelli and Gustavo
{De Veciana} and Haris Vikalo",
title = "End-to-End Optimization of High-Throughput {DNA}
Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "10",
pages = "789--800",
month = oct,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2016",
}
@Article{Galvez:2016:SBA,
author = "Sergio G{\'a}lvez and Adis Ferusic and Francisco J.
Esteban and Pilar Hern{\'a}ndez and Juan A. Caballero
and Gabriel Dorado",
title = "Speeding-up Bioinformatics Algorithms with
Heterogeneous Architectures: Highly Heterogeneous
{Smith-Waterman} {(HHeterSW)}",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "10",
pages = "801--809",
month = oct,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0237;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0237",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2016",
}
@Article{Hernandez:2016:DSG,
author = "Troy Hernandez and Jie Yang",
title = "Descriptive Statistics of the Genome: Phylogenetic
Classification of Viruses",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "10",
pages = "810--820",
month = oct,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2013.0132",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2013.0132;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2013.0132",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 July 2016",
}
@Article{Zhao:2016:GTM,
author = "Shufang Zhao and Yichao He and Xinlu Zhang and Wen Xu
and Weili Wu and Suogang Gao",
title = "Group Testing with Multiple Inhibitor Sets and
Error-Tolerant and Its Decoding Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "10",
pages = "821--829",
month = oct,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2014.0202",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2014.0202;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2014.0202",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2016",
}
@Article{Hu:2016:SEU,
author = "Yucheng Hu and Gongrong Yang",
title = "Sequence Evolution Under Constraints: Lessons Learned
from {Sudoku}",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "10",
pages = "830--840",
month = oct,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0218",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0218;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0218",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 March 2016",
}
@Article{Madec:2016:GOS,
author = "Morgan Madec and Fran{\c{c}}ois Pecheux and Yves
Gendrault and Elise Rosati and Christophe Lallement and
Jacques Haiech",
title = "{GeNeDA}: an Open-Source Workflow for Design
Automation of Gene Regulatory Networks Inspired from
Microelectronics",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "10",
pages = "841--855",
month = oct,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0229",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:38 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/gnu.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0229;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0229",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2016",
}
@Article{Barrett:2016:RSS,
author = "Christopher L. Barrett and Thomas J. X. Li and
Christian M. Reidys",
title = "{RNA} Secondary Structures Having a Compatible
Sequence of Certain Nucleotide Ratios",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "11",
pages = "857--873",
month = nov,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0049",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:40 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0049;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0049",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2016",
}
@Article{Ristov:2016:FSP,
author = "Strahil Ristov",
title = "A Fast and Simple Pattern Matching with {Hamming}
Distance on Large Alphabets",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "11",
pages = "874--876",
month = nov,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0020",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:40 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0020;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0020",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 June 2016",
}
@Article{Guo:2016:NRR,
author = "Wenchuan Guo and Zhenqiu Liu and Shujie Ma",
title = "Nonparametric Regularized Regression for
Phenotype-Associated Taxa Selection and Network
Construction with Metagenomic Count Data",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "11",
pages = "877--890",
month = nov,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:40 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 July 2016",
}
@Article{Pereira:2016:HFA,
author = "Mariana Buongermino Pereira and Mikael Wallroth and
Erik Kristiansson and Marina Axelson-Fisk",
title = "{HattCI}: Fast and Accurate \bioname{attC} site
Identification Using Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "11",
pages = "891--902",
month = nov,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:40 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0024;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 July 2016",
}
@Article{Hashemifar:2016:JAM,
author = "Somaye Hashemifar and Qixing Huang and Jinbo Xu",
title = "Joint Alignment of Multiple Protein--Protein
Interaction Networks via Convex Optimization",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "11",
pages = "903--911",
month = nov,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:40 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 July 2016",
}
@Article{Amar:2016:CUP,
author = "Lamiaa A. Amar and Nahla A. Belal and Shaheera
Rashwan",
title = "Comparing Unlabeled Pedigree Graphs via Covering with
Bipartite and Path",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "11",
pages = "912--922",
month = nov,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0040",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:40 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0040;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0040",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 July 2016",
}
@Article{Bizjak:2016:CFM,
author = "Manca Bizjak and Nikolaj Zimic and Miha Mraz and Miha
Mo{\v{s}}kon",
title = "Computational Framework for Modeling Multiple
Noncooperative Transcription Factor Binding and Its
Application to the Analysis of Nuclear Factor Kappa {B}
Oscillatory Response",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "12",
pages = "923--933",
month = dec,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0065;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0065",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2016",
}
@Article{Fomin:2016:SARb,
author = "Eduard Fomin",
title = "A Simple Approach to the Reconstruction of a Set of
Points from the Multiset of $ n^2 $ Pairwise Distances
in $ n^2 $ Steps for the Sequencing Problem: {II.}
Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "12",
pages = "934--942",
month = dec,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0046",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0046;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0046",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 June 2016",
}
@Article{Guo:2016:EER,
author = "Qiang-Hui Guo and Lisa H. Sun and Jian Wang",
title = "Enumeration of Extended $m$-Regular Linear Stacks",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "12",
pages = "943--956",
month = dec,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0041;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0041",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 June 2016",
}
@Article{Deandres-Galiana:2016:IMP,
author = "Enrique J. Deandr{\'e}s-Galiana and Juan Luis
Fern{\'a}ndez-Mart{\'\i}nez and Leorey N. Saligan and
Stephen T. Sonis",
title = "Impact of Microarray Preprocessing Techniques in
Unraveling Biological Pathways",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "12",
pages = "957--968",
month = dec,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0042;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 August 2016",
}
@Article{Johnston:2016:PDP,
author = "Sean B. Johnston and Ronald T. Raines",
title = "{PTENpred}: a Designer Protein Impact Predictor for
{PTEN-related} Disorders",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "12",
pages = "969--975",
month = dec,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0058",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0058;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0058",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 June 2016",
}
@Article{Pirro:2016:BPE,
author = "Stefano Pirr{\`o} and Antonella Minutolo and Andrea
Galgani and Marina Potest{\`a} and Vittorio Colizzi and
Carla Montesano",
title = "Bioinformatics Prediction and Experimental Validation
of {MicroRNAs} Involved in Cross-Kingdom Interaction",
journal = j-J-COMPUT-BIOL,
volume = "23",
number = "12",
pages = "976--989",
month = dec,
year = "2016",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0059",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:42 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0059;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0059",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 July 2016",
}
@Article{He:2017:PSA,
author = "Jing He and Nurit Haspel and Brian Chen",
title = "Preface: Selected Articles from {2015 Computational
Structural Bioinformatics Workshop}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "1--1",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.29004.jh",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.29004.jh",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 January 2017",
}
@Article{Cao:2017:UVL,
author = "Hu Cao and Yonggang Lu",
title = "Using Variable-Length Aligned Fragment Pairs and an
Improved Transition Function for Flexible Protein
Structure Alignment",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "2--12",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0135;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0135",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 October 2016",
}
@Article{Kim:2017:CVD,
author = "Jin Seob Kim and Bijan Afsari and Gregory S.
Chirikjian",
title = "Cross-Validation of Data Compatibility Between Small
Angle {X}-ray Scattering and Cryo-Electron Microscopy",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "13--30",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 October 2016",
}
@Article{Cheng:2017:GAM,
author = "Wen Cheng and Changhui Yan",
title = "A Graph Approach to Mining Biological Patterns in the
Binding Interfaces",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "31--39",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0128",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0128;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0128",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 November 2016",
}
@Article{Farhoodi:2017:MLA,
author = "Roshanak Farhoodi and Bahar Akbal-Delibas and Nurit
Haspel",
title = "Machine Learning Approaches for Predicting Protein
Complex Similarity",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "40--51",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0137",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0137;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0137",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2016",
}
@Article{Zeil:2017:CAM,
author = "Stephanie Zeil and Julio Kovacs and Willy Wriggers and
Jing He",
title = "Comparing an Atomic Model or Structure to a
Corresponding Cryo-electron Microscopy Image at the
Central Axis of a Helix",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "52--67",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 December 2016",
}
@Article{Nolan:2017:IMS,
author = "Bridget E. Nolan and Emily Levenson and Brian Y.
Chen",
title = "Influential Mutations in the {SMAD4} Trimer Complex
Can Be Detected from Disruptions of Electrostatic
Complementarity",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "68--78",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0162",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0162;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0162",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 January 2017",
}
@Article{Novinskaya:2017:DLD,
author = "Anastasia Novinskaya and Didier Devaurs and Mark Moll
and Lydia E. Kavraki",
title = "Defining Low-Dimensional Projections to Guide Protein
Conformational Sampling",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "1",
pages = "79--89",
month = jan,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 November 2016",
}
@Article{Dediu:2017:PSA,
author = "Adrian-Horia Dediu and Carlos Mart{\'\i}n-Vide",
title = "Preface: Selected Articles of the {Second
International Conference on Algorithms for
Computational Biology (AlCoB 2015)}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "91--92",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.29005.ahd",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.29005.ahd",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 February 2017",
}
@Article{Alexeev:2017:GHN,
author = "Nikita Alexeev and Anna Pologova and Max A.
Alekseyev",
title = "Generalized {Hultman} Numbers and Cycle Structures of
Breakpoint Graphs",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "93--105",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0190",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0190;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0190",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2017",
}
@Article{Jansson:2017:MPA,
author = "Jesper Jansson and Ramesh Rajaby",
title = "A More Practical Algorithm for the Rooted Triplet
Distance",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "106--126",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2016",
}
@Article{Zeira:2017:SCJ,
author = "Ron Zeira and Ron Shamir",
title = "Sorting by Cuts, Joins, and Whole Chromosome
Duplications",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "127--137",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0045",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0045;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0045",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2016",
}
@Article{Park:2017:IBF,
author = "Heewon Park and Atsushi Niida and Seiya Imoto and
Satoru Miyano",
title = "Interaction-Based Feature Selection for Uncovering
Cancer Driver Genes Through Copy Number-Driven
Expression Level",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "138--152",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0140",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0140;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0140",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 October 2016",
}
@Article{Allman:2017:SCM,
author = "Elizabeth S. Allman and John A. Rhodes and Seth
Sullivant",
title = "Statistically Consistent $k$-mer Methods for
Phylogenetic Tree Reconstruction",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "153--171",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0216",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0216;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0216",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2016",
}
@Article{Tian:2017:IGI,
author = "Xin Tian and Mingyuan Xin and Jian Luo and Mingyao Liu
and Zhenran Jiang",
title = "Identification of Genes Involved in Breast Cancer
Metastasis by Integrating Protein--Protein Interaction
Information with Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "172--182",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0206",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0206;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0206",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2016",
}
@Article{Zhou:2017:EPR,
author = "Jie Zhou",
title = "Effect of Protein Repetitiveness on Protein--Protein
Interaction Prediction Results Using Support Vector
Machines",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "2",
pages = "183--192",
month = feb,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0233",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0233;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0233",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2016",
}
@Article{Wilczynski:2017:FIT,
author = "Bartek Wilczynski and Jerzy Tiuryn",
title = "{FastBill}: an Improved Tool for Prediction of {{\em
Cis\/}}-Regulatory Modules",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "193--199",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 October 2016",
}
@Article{Prakash:2017:ECM,
author = "Celine Prakash and Arndt {Von Haeseler}",
title = "An Enumerative Combinatorics Model for Fragmentation
Patterns in {RNA} Sequencing Provides Insights into
Nonuniformity of the Expected Fragment Starting-Point
and Coverage Profile",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "200--212",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2016",
}
@Article{Budden:2017:CTI,
author = "David Budden and Mitchell Jones",
title = "Cautionary Tales of Inapproximability",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "213--216",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0097;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0097",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2016",
}
@Article{Zhang:2017:OOM,
author = "Li Zhang and Han Wang and Lun Yan and Lingtao Su and
Dong Xu",
title = "{OMPcontact}: an Outer Membrane Protein Inter-Barrel
Residue Contact Prediction Method",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "217--228",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2015.0236",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2015.0236;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2015.0236",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 August 2016",
}
@Article{Cole:2017:NMS,
author = "Marc Cole and Steffen Eikenberry and Takahide Kato and
Roman A. Sandler and Stanley M. Yamashiro and Vasilis
Z. Marmarelis",
title = "Nonparametric Model of Smooth Muscle Force Production
During Electrical Stimulation",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "229--237",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0070",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0070;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0070",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 August 2016",
}
@Article{Gigrich:2017:NAA,
author = "James Gigrich and Shahryar Sarkani and Thomas Holzer",
title = "A New Approach in Applying Systems Engineering Tools
and Analysis to Determine Hepatocyte Toxicogenomics
Risk Levels to Human Health",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "238--254",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2016",
}
@Article{Borguesan:2017:NSN,
author = "Bruno Borguesan and Mario Inostroza-Ponta and
M{\'a}rcio Dorn",
title = "{NIAS-Server}: Neighbors Influence of Amino acids and
Secondary Structures in Proteins",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "3",
pages = "255--265",
month = mar,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0074",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:49 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0074;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0074",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 August 2016",
}
@Article{Sverdlov:2017:CME,
author = "Serge Sverdlov and Elizabeth Thompson",
title = "Combinatorial Methods for Epistasis and Dominance",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "267--279",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0112",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0112;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0112",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 November 2016",
}
@Article{Al-Okaily:2017:TBC,
author = "Anas Al-Okaily and Badar Almarri and Sultan {Al Yami}
and Chun-Hsi Huang",
title = "Toward a Better Compression for {DNA} Sequences Using
{Huffman} Encoding",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "280--288",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/datacompression.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 December 2016",
}
@Article{Yang:2017:DHH,
author = "Doo Yang and Ilya Ioshikhes",
title = "\bioname{Drosophila} {H2A} and {H2A.Z} Nucleosome
Sequences Reveal Different Nucleosome Positioning
Sequence Patterns",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "289--298",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 December 2016",
}
@Article{Yang:2017:MGR,
author = "Lianping Yang and Weilin Zhang",
title = "A Multiresolution Graphical Representation for
Similarity Relationship and Multiresolution Clustering
for Biological Sequences",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "299--310",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0030",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0030;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0030",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 December 2016",
}
@Article{Jonsson:2017:VMC,
author = "Viktor Jonsson and Tobias {\"O}sterlund and Olle
Nerman and Erik Kristiansson",
title = "Variability in Metagenomic Count Data and Its
Influence on the Identification of Differentially
Abundant Genes",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "311--326",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0180",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0180;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0180",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 November 2016",
}
@Article{Venkat:2017:BNB,
author = "Priya S. Venkat and Krishna R. Narayanan and Aniruddha
Datta",
title = "A {Bayesian} Network-Based Approach to Selection of
Intervention Points in the Mitogen-Activated Protein
Kinase Plant Defense Response Pathway",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "327--339",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0089",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0089;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0089",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2016",
}
@Article{Gogoshin:2017:NAS,
author = "Grigoriy Gogoshin and Eric Boerwinkle and Andrei S.
Rodin",
title = "New Algorithm and Software {(BNOmics)} for Inferring
and Visualizing {Bayesian} Networks from Heterogeneous
Big Biological and Genetic Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "340--356",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2016",
}
@Article{Jakaitiene:2017:BBM,
author = "Audrone Jakaitiene and Mariano Avino and Mario Rosario
Guarracino",
title = "Beta-Binomial Model for the Detection of Rare
Mutations in Pooled Next-Generation Sequencing
Experiments",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "357--367",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 September 2016",
}
@Article{Wang:2017:RFA,
author = "Ying Wang and Haiyan Hu and Xiaoman Li",
title = "{rRNAFilter}: a Fast Approach for Ribosomal {RNA} Read
Removal Without a Reference Database",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "4",
pages = "368--375",
month = apr,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:51 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2016",
}
@Article{Dhar:2017:CHO,
author = "Amrit Dhar and Vladimir N. Minin",
title = "Calculating Higher-Order Moments of Phylogenetic
Stochastic Mapping Summaries in Linear Time",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "377--399",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 February 2017",
}
@Article{Lee:2017:SPR,
author = "Gira Lee and Hokeun Sun",
title = "Selection Probability for Rare Variant Association
Studies",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "400--411",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0222",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0222;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0222",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2017",
}
@Article{Yanev:2017:PFP,
author = "Nicola Yanev and Metodi Traykov and Peter Milanov and
Borislav Yurukov",
title = "Protein Folding Prediction in a Cubic Lattice in
Hydrophobic-Polar Model",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "412--421",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0181;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 November 2016",
}
@Article{Bogdanowicz:2017:CPT,
author = "Damian Bogdanowicz and Krzysztof Giaro",
title = "Comparing Phylogenetic Trees by Matching Nodes Using
the Transfer Distance Between Partitions",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "422--435",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0204",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0204;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0204",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 February 2017",
}
@Article{Yang:2017:PAM,
author = "Sihai Yang and Xianhua Han and Yukako Tohsato and Koji
Kyoda and Shuichi Onami and Ikuko Nishikawa and Yenwei
Chen",
title = "Phenotype Analysis Method for Identification of Gene
Functions Involved in Asymmetric Division of
\bioname{Caenorhabditis elegans}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "436--446",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0210",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0210;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0210",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 February 2017",
}
@Article{Barrios:2017:DIG,
author = "David Barrios and Carlos Prieto",
title = "{D3GB}: an Interactive Genome Browser for {R},
{Python}, and {WordPress}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "447--449",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0213",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/python.bib;
http://www.math.utah.edu/pub/tex/bib/s-plus.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0213;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0213",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 February 2017",
}
@Article{Tran:2017:CBM,
author = "Ngoc Tam L. Tran and Chun-Hsi Huang",
title = "Cloud-based {MOTIFSIM}: Detecting Similarity in Large
{DNA} Motif Data Sets",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "450--459",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0080",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0080;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0080",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2016",
}
@Article{Anand:2017:EGI,
author = "Rajat Anand and Samrat Chatterjee",
title = "Extracting Genes Involved in Disease from a Connected
Network of Perturbed Biological Processes",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "5",
pages = "460--469",
month = may,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:53 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 March 2017",
}
@Article{Anonymous:2017:PSP,
author = "Anonymous",
title = "Preface: Selected Papers from {RECOMB 2016}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "471--471",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.29006.ms",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.29006.ms",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2017",
}
@Article{Zuo:2017:MBA,
author = "Chandler Zuo and Kailei Chen and S{\"u}nd{\"u}z
Kele{\c{s}}",
title = "A {MAD-Bayes} Algorithm for State-Space Inference and
Clustering with Application to Querying Large
Collections of {ChIP-Seq} Data Sets",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "472--485",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0138",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0138;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0138",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 November 2016",
}
@Article{Wang:2017:ARR,
author = "Hao Wang and Joel McManus and Carl Kingsford",
title = "Accurate Recovery of Ribosome Positions Reveals Slow
Translation of Wobble-Pairing Codons in Yeast",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "486--500",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 October 2016",
}
@Article{Kshirsagar:2017:MMC,
author = "Meghana Kshirsagar and Keerthiram Murugesan and Jaime
G. Carbonell and Judith Klein-Seetharaman",
title = "Multitask Matrix Completion for Learning Protein
Interactions Across Diseases",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "501--514",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0201;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0201",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 January 2017",
}
@Article{Donmez:2017:CIS,
author = "Nilgun Donmez and Salem Malikic and Alexander W. Wyatt
and Martin E. Gleave and Colin C. Collins and S. Cenk
Sahinalp",
title = "Clonality Inference from Single Tumor Samples Using
Low-Coverage Sequence Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "515--523",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2017",
}
@Article{Fusi:2017:FMG,
author = "Nicolo Fusi and Jennifer Listgarten",
title = "Flexible Modeling of Genetic Effects on
Function-Valued Traits",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "524--535",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0174;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0174",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2017",
}
@Article{Hallen:2017:LLU,
author = "Mark A. Hallen and Jonathan D. Jou and Bruce R.
Donald",
title = "{LUTE} (Local Unpruned Tuple Expansion): Accurate
Continuously Flexible Protein Design with General
Energy Functions and Rigid Rotamer-Like Efficiency",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "536--546",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2016",
}
@Article{Pellow:2017:IBF,
author = "David Pellow and Darya Filippova and Carl Kingsford",
title = "Improving {Bloom} Filter Performance on Sequence Data
Using $k$-mer {Bloom} Filters",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "547--557",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 November 2016",
}
@Article{Artyomenko:2017:LSM,
author = "Alexander Artyomenko and Nicholas C. Wu and Serghei
Mangul and Eleazar Eskin and Ren Sun and Alex
Zelikovsky",
title = "Long Single-Molecule Reads Can Resolve the Complexity
of the Influenza Virus Composed of Rare, Closely
Related Mutant Variants",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "558--570",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0146",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0146;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0146",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 November 2016",
}
@Article{Shao:2017:CBD,
author = "Mingfu Shao and Bernard M. E. Moret",
title = "On Computing Breakpoint Distances for Genomes with
Duplicate Genes",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "571--580",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 October 2016",
}
@Article{Sahlin:2017:SVD,
author = "Kristoffer Sahlin and Mattias Fr{\aa}nberg and Lars
Arvestad",
title = "Structural Variation Detection with Read Pair
Information: an Improved Null Hypothesis Reduces Bias",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "581--589",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0124",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0124;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0124",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2016",
}
@Article{Tomescu:2017:SCC,
author = "Alexandru I. Tomescu and Paul Medvedev",
title = "Safe and Complete Contig Assembly Through Omnitigs",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "590--602",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0141",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0141;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0141",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2016",
}
@Article{Cristea:2017:PJI,
author = "Simona Cristea and Jack Kuipers and Niko
Beerenwinkel",
title = "{pathTiMEx}: Joint Inference of Mutually Exclusive
Cancer Pathways and Their Progression Dynamics",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "603--615",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 December 2016",
}
@Article{Doerr:2017:NGS,
author = "Daniel Doerr and Luis Antonio B. Kowada and Eloi
Araujo and Shachi Deshpande and Simone Dantas and
Bernard M. E. Moret and Jens Stoye",
title = "New Genome Similarity Measures based on Conserved Gene
Adjacencies",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "6",
pages = "616--634",
month = jun,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0065;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0065",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2017",
}
@Article{Huang:2017:SIS,
author = "Haiyan Huang and Hua Tang and Jing Huang and Bin Chen
and Ruixiao Liu and Rui (Sammi) Tang and Ying Lu and
Peng Yang",
title = "Special Issue: Selected Papers of the {Inaugural
DahShu Data Science Symposium: Computational Precision
Health (CPH 2017)}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "635--636",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.29007.hh",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.29007.hh",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2017",
}
@Article{Hao:2017:RFD,
author = "Yangyang Hao and Xiaoling Xuei and Lang Li and
Harikrishna Nakshatri and Howard J. Edenberg and
Yunlong Liu",
title = "{RareVar}: a Framework for Detecting Low-Frequency
Single-Nucleotide Variants",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "637--646",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0057",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0057;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0057",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2017",
}
@Article{Ma:2017:JBM,
author = "Tianzhou Ma and Faming Liang and Steffi Oesterreich
and George C. Tseng",
title = "A Joint {Bayesian} Model for Integrating Microarray
and {RNA} Sequencing Transcriptomic Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "647--662",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0056;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0056",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2017",
}
@Article{Shi:2017:ICS,
author = "Funan Shi and Haiyan Huang",
title = "Identifying Cell Subpopulations and Their Genetic
Drivers from Single-Cell {RNA-Seq} Data Using a
Biclustering Approach",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "663--674",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0049",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0049;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0049",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2017",
}
@Article{Clifton:2017:HSM,
author = "Sara M. Clifton and Chaeryon Kang and Jingyi Jessica
Li and Qi Long and Nirmish Shah and Daniel M. Abrams",
title = "Hybrid Statistical and Mechanistic Mathematical Model
Guides Mobile Health Intervention for Chronic Pain",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "675--688",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0059",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0059;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0059",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 June 2017",
}
@Article{Yang:2017:SCA,
author = "Hu Yang and Xiaoqin Liu",
title = "Studies on the Clustering Algorithm for Analyzing Gene
Expression Data with a Bidirectional Penalty",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "689--698",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0051;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0051",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 May 2017",
}
@Article{Fang:2017:GCD,
author = "Huaying Fang and Chengcheng Huang and Hongyu Zhao and
Minghua Deng",
title = "{gCoda}: Conditional Dependence Network Inference for
Compositional Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "699--708",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0054",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0054;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0054",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 May 2017",
}
@Article{Lee:2017:CTS,
author = "Minhyeok Lee and Junhee Seok and Donghyun Tae and Hua
Zhong and Sung Won Han",
title = "A Comparison of Two-Stage Approaches Based on
Penalized Regression for Estimating Gene Networks",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "709--720",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 May 2017",
}
@Article{Choi:2017:PLN,
author = "Yoonha Choi and Marc Coram and Jie Peng and Hua Tang",
title = "A {Poisson} Log-Normal Model for Constructing Gene
Covariation Network Using {RNA-seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "7",
pages = "721--731",
month = jul,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0053",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:52:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0053;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0053",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 May 2017",
}
@Article{Diallo:2017:PSP,
author = "Abdoulaye Banir{\'e} Diallo and Engelbert Mephu Nguifo
and Mohammed J. Zaki",
title = "Preface: Selected Papers from the {Workshop
Bioinformatics and Artificial Intelligence Joined with
the International Joint Conference on Artificial
Intelligence}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "733--733",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.29008.abd",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.29008.abd",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2017",
}
@Article{Picard:2017:LCP,
author = "Vincent Picard and Anne Siegel and J{\'e}r{\'e}mie
Bourdon",
title = "A Logic for Checking the Probabilistic Steady-State
Properties of Reaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "734--745",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0099",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0099;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0099",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2017",
}
@Article{Alkhateeb:2017:ZAP,
author = "Abedalrhman Alkhateeb and Luis Rueda",
title = "Zseq: an Approach for Preprocessing Next-Generation
Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "746--755",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0021",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0021;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0021",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2017",
}
@Article{Firoozbakht:2017:IAI,
author = "Forough Firoozbakht and Iman Rezaeian and Michele
D'agnillo and Lisa Porter and Luis Rueda and Alioune
Ngom",
title = "An Integrative Approach for Identifying Network
Biomarkers of Breast Cancer Subtypes Using Genomic,
Interactomic, and Transcriptomic Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "756--766",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 June 2017",
}
@Article{Vasiljeva:2017:DPE,
author = "Ieva Vasiljeva and Ognjen Arandjelovi{\'c}",
title = "Diagnosis Prediction from Electronic Health Records
Using the Binary Diagnosis History Vector
Representation",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "767--786",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2017",
}
@Article{Lam:2017:EVI,
author = "Ham Ching Lam and Xuan Bi and Srinand Sreevatsan and
Daniel Boley",
title = "Evolution and Vaccination of Influenza Virus",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "787--798",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2017",
}
@Article{Halioui:2017:GDG,
author = "Ahmed Halioui and Petko Valtchev and Abdoulaye
Banir{\'e} Diallo",
title = "{T-GOWler}: Discovering Generalized Process Models
Within Texts",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "799--808",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0085",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0085;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0085",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2017",
}
@Article{DeSouzaJacomini:2017:GNF,
author = "Ricardo {De Souza Jacomini} and David Correa {Martins,
Jr.} and Felipe Leno {Da Silva} and Anna Helena {Reali
Costa}",
title = "{GeNICE}: a Novel Framework for Gene Network Inference
by Clustering, Exhaustive Search, and Multivariate
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "8",
pages = "809--830",
month = aug,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:00 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2017",
}
@Article{Disanto:2017:EAC,
author = "Filippo Disanto and Noah A. Rosenberg",
title = "Enumeration of Ancestral Configurations for Matching
Gene Trees and Species Trees",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "831--850",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0159",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0159;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0159",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 April 2017",
}
@Article{Dai:2017:SST,
author = "Zheng Dai and David Becerra and J{\'e}r{\^o}me
Waldisp{\"u}hl",
title = "On Stable States in a Topologically Driven Protein
Folding Model",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "851--862",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0034",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0034;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0034",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2017",
}
@Article{Altarawy:2017:PIC,
author = "Doaa Altarawy and Fatma-Elzahraa Eid and Lenwood S.
Heath",
title = "{PEAK}: Integrating Curated and Noisy Prior Knowledge
in Gene Regulatory Network Inference",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "863--873",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 March 2017",
}
@Article{White:2017:AIA,
author = "Daniel J. White and Jing Wang and Richard J. Hall",
title = "Assessing the Impact of Assemblers on Virus Detection
in a {De} {Novo} Metagenomic Analysis Pipeline",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "874--881",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2017",
}
@Article{Khanna:2017:DCA,
author = "Radhika Khanna and Sangeeta Mittal and Sujata
Mohanty",
title = "Development of Computer Algorithm for Editing of Next
Generation Sequencing Metagenome Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "882--894",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0179;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0179",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2017",
}
@Article{Tran:2017:MES,
author = "Ngoc Tam L. Tran and Chun-Hsi Huang",
title = "{MOTIFSIM 2.1}: an Enhanced Software Platform for
Detecting Similarity in Multiple {DNA} Motif Data
Sets",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "895--905",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0005",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0005;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0005",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2017",
}
@Article{Godin:2017:MPA,
author = "Noa Godin and Jerry Eichler",
title = "The Mitochondrial Protein Atlas: a Database of
Experimentally Verified Information on the Human
Mitochondrial Proteome",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "906--916",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0011",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0011;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0011",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2017",
}
@Article{Park:2017:PCA,
author = "Byeonghyeok Park and Min-Jeong Baek and Byoungnam Min
and In-Geol Choi",
title = "Prokaryotic Contig Annotation Pipeline Server: {Web}
Application for a Prokaryotic Genome Annotation
Pipeline Based on the \pkg{Shiny App} Package",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "917--922",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0066;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0066",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2017",
}
@Article{Ma:2017:DCB,
author = "Xiuli Ma and Guangyu Zhou and Jingbo Shang and
Jingjing Wang and Jian Peng and Jiawei Han",
title = "Detection of Complexes in Biological Networks Through
Diversified Dense Subgraph Mining",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "923--941",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0037",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0037;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0037",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2017",
}
@Article{Zheng:2017:ICA,
author = "Yu Zheng and Xiaoyang Li and Lydia C. Manor and
Hongbao Cao and Qiusheng Chen",
title = "An Integrative Computational Approach to Evaluate
Genetic Markers for Chronic Lymphocytic Leukemia",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "9",
pages = "942--952",
month = sep,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:02 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0041;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0041",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2017",
}
@Article{Bonizzoni:2017:FFS,
author = "Paola Bonizzoni and Gianluca Della Vedova and Yuri
Pirola and Marco Previtali and Raffaella Rizzi",
title = "{FSG}: Fast String Graph Construction for {De} {Novo}
Assembly",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "953--968",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0089",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0089;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0089",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 July 2017",
}
@Article{Balaur:2017:EGD,
author = "Irina Balaur and Mansoor Saqi and Ana Barat and Artem
Lysenko and Alexander Mazein and Christopher J.
Rawlings and Heather J. Ruskin and Charles Auffray",
title = "{EpiGeNet}: a Graph Database of Interdependencies
Between Genetic and Epigenetic Events in Colorectal
Cancer",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "969--980",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 September 2016",
}
@Article{Yang:2017:PSO,
author = "Cheng-Hong Yang and Yu-Shiun Lin and Li-Yeh Chuang and
Hsueh-Wei Chang",
title = "A Particle Swarm Optimization-Based Approach with
Local Search for Predicting Protein Folding",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "981--994",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0104",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0104;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0104",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2017",
}
@Article{Gonzalez-Perez:2017:CAS,
author = "Pedro P. Gonz{\'a}lez-P{\'e}rez and Daniel J. Orta and
Irving Pe{\~n}a and Eduardo C. Flores and Jos{\'e} U.
Ram{\'\i}rez and Hiram I. Beltr{\'a}n and Salom{\'o}n
J. Alas",
title = "A Computational Approach to Studying Protein Folding
Problems Considering the Crucial Role of the
Intracellular Environment",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "995--1013",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 February 2017",
}
@Article{Milewski:2017:ENS,
author = "Marek C. Milewski and Karol Kamel and Anna
Kurzynska-Kokorniak and Marcin K. Chmielewski and Marek
Figlerowicz",
title = "{EvOligo}: a Novel Software to Design and Group
Libraries of Oligonucleotides Applicable for Nucleic
Acid-Based Experiments",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "1014--1028",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0154;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 March 2017",
}
@Article{Thomas:2017:ERT,
author = "Lebin Thomas and Hari Ram and Ved Pal Singh",
title = "Evolutionary Relationships and Taxa-Specific Conserved
Signature Indels Among Cellulases of Archaea, Bacteria,
and Eukarya",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "1029--1042",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 February 2017",
}
@Article{Kadumuri:2017:LGU,
author = "Rajashekar Varma Kadumuri and Ramakrishna Vadrevu",
title = "{LoopX}: a Graphical User Interface-Based Database for
Comprehensive Analysis and Comparative Evaluation of
Loops from Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "1043--1049",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 April 2017",
}
@Article{Ai:2017:PPP,
author = "Haixin Ai and Runlin Wu and Li Zhang and Xuewei Wu and
Junchao Ma and Huan Hu and Liangchao Huang and Wen Chen
and Jian Zhao and Hongsheng Liu",
title = "{pSuc-PseRat}: Predicting {Lysine} Succinylation in
Proteins by Exploiting the Ratios of Sequence Coupling
and Properties",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "1050--1059",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0206",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0206;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0206",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2017",
}
@Article{Deng:2017:GWS,
author = "Feilong Deng and Shi-Yi Chen and Zhou-Lin Wu and
Yongsong Hu and Xianbo Jia and Song-Jia Lai",
title = "{GFFview}: a {Web} Server for Parsing and Visualizing
Annotation Information of Eukaryotic Genome",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "1060--1064",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0216",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0216;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0216",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 March 2017",
}
@Article{Krupska:2017:IOE,
author = "Aldona Krupska",
title = "Influence of Oscillatory Enzyme Activity on the
Reaction Kinetics: Mathematical Model",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "10",
pages = "1065--1070",
month = oct,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0001",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:04 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0001;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0001",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2017",
}
@Article{Castro:2017:UNM,
author = "Christina J. Castro and Terry Fei Fan Ng",
title = "{U$_{50}$}: a New Metric for Measuring Assembly Output
Based on Non-Overlapping, Target-Specific Contigs",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1071--1080",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 April 2017",
}
@Article{Sagiroglu:2017:SAE,
author = "Mahmut {\c{S}}am{\.i}l Sa{\u{g}}iro{\u{g}}lu and M.
O{\u{g}}uzhan K{\"u}lekc{\.i}",
title = "A System Architecture for Efficient Transmission of
Massive {DNA} Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1081--1088",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0016",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0016;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0016",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2017",
}
@Article{Blazej:2017:RSS,
author = "Pawe{\l} B{\l}a{\.z}ej and Ma{\l}gorzata
Wn{\k{e}}trzak and Ma{\l}gorzata Grabi{\'n}ska and
Pawe{\l} Mackiewicz",
title = "Representations of Search Spaces in the Problem of
Mutational Pressure Optimization According to
Protein-Coding Sequences",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1089--1098",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0017",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0017;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0017",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2017",
}
@Article{Zhou:2017:GRN,
author = "Yan Zhou and Baoxue Zhang and Gaorong Li and Tiejun
Tong and Xiang Wan",
title = "{GD-RDA}: a New Regularized Discriminant Analysis for
High-Dimensional Data",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1099--1111",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2017",
}
@Article{Lv:2017:ATF,
author = "Shengqing Lv and Yimin Chen and Zeyu Li and Jiahui Lu
and Mingke Gao and Rongrong Lu",
title = "Application of Time-Frequency Domain Transform to
Three-Dimensional Interpolation of Medical Images",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1112--1124",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0038",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0038;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0038",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2017",
}
@Article{Barros-Carvalho:2017:EAE,
author = "Gesiele Almeida Barros-Carvalho and Marie-Anne {Van
Sluys} and Fabricio Martins Lopes",
title = "An Efficient Approach to Explore and Discriminate
Anomalous Regions in Bacterial Genomes Based on Maximum
Entropy",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1125--1133",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0042",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0042;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0042",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2017",
}
@Article{Cerisier:2017:CVL,
author = "Natacha Cerisier and Leslie Regad and Dhoha Triki and
Anne-Claude Camproux and Michel Petitjean",
title = "Cavity Versus Ligand Shape Descriptors: Application to
Urokinase Binding Pockets",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1134--1137",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0061",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0061;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0061",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 June 2017",
}
@Article{Kechin:2017:CNT,
author = "Andrey Kechin and Uljana Boyarskikh and Alexander Kel
and Maxim Filipenko",
title = "{cutPrimers}: a New Tool for Accurate Cutting of
Primers from Reads of Targeted Next Generation
Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1138--1143",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 July 2017",
}
@Article{Rubio-Largo:2017:RAT,
author = "{\'A}lvaro Rubio-Largo and Leonardo Vanneschi and
Mauro Castelli and Miguel A. Vega-Rodr{\'\i}guez",
title = "Reducing Alignment Time Complexity of Ultra-Large Sets
of Sequences",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "11",
pages = "1144--1152",
month = nov,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:07 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0097;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0097",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 July 2017",
}
@Article{Sakhanenko:2017:ICD,
author = "Nikita A. Sakhanenko and James Kunert-Graf and David
J. Galas",
title = "The Information Content of Discrete Functions and
Their Application in Genetic Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1153--1178",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 October 2017",
}
@Article{Zeira:2017:LTA,
author = "Ron Zeira and Meirav Zehavi and Ron Shamir",
title = "A Linear-Time Algorithm for the Copy Number
Transformation Problem",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1179--1194",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0060",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0060;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0060",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 August 2017",
}
@Article{Chen:2017:AWP,
author = "Wenbin Chen and William Hendrix and Nagiza F.
Samatova",
title = "The Application of the Weighted $k$-Partite Graph
Problem to the Multiple Alignment for Metabolic
Pathways",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1195--1211",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 September 2017",
}
@Article{Yang:2017:JAS,
author = "Cheng-Hong Yang and Yu-Da Lin and Li-Yeh Chuang and
Jin-Bor Chen and Hsueh-Wei Chang",
title = "Joint Analysis of {SNP--SNP-Environment} Interactions
for Chronic Dialysis by an Improved Branch and Bound
Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1212--1225",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 September 2017",
}
@Article{Elmarakeby:2017:BEC,
author = "Haitham Elmarakeby and Mostafa Arefiyan and Elijah
Myers and Song Li and Ruth Grene and Lenwood S. Heath",
title = "{Beacon Editor}: Capturing Signal Transduction
Pathways Using the Systems Biology Graphical Notation
Activity Flow Language",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1226--1229",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2017",
}
@Article{Su:2017:MSA,
author = "Wenhe Su and Xiangke Liao and Yutong Lu and Quan Zou
and Shaoliang Peng",
title = "Multiple Sequence Alignment Based on a Suffix Tree and
Center-Star Strategy: a Linear Method for Multiple
Nucleotide Sequence Alignment on Spark Parallel
Framework",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1230--1242",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0040",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0040;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0040",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2017",
}
@Article{Pei:2017:GCP,
author = "Chao Pei and Shu-Lin Wang and Jianwen Fang and Wei
Zhang",
title = "{GSMC}: Combining Parallel {Gibbs} Sampling with
Maximal Cliques for Hunting {DNA} Motif",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1243--1253",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2017",
}
@Article{Tsai:2017:ESM,
author = "Shin-Fu Tsai and Chih-Wei Tung and Chen-An Tsai and
Chen-Tuo Liao",
title = "An Exhaustive Scan Method for {SNP} Main Effects and
{SNP $ \times $ SNP} Interactions Over Highly
Homozygous Genomes",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1254--1264",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0140",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0140;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0140",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 November 2017",
}
@Article{Shrestha:2017:GED,
author = "Samana Shrestha and Adam Vanasse and Leon N. Cooper
and Michael P. Antosh",
title = "Gene Expression as a Dosimeter in Irradiated
\bioname{Drosophila melanogaster}",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1265--1274",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0170;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2017",
}
@Article{Shahinuzzaman:2017:MAS,
author = "Md Shahinuzzaman and Dipak Barua",
title = "A Multiscale Algorithm for Spatiotemporal Modeling of
Multivalent Protein--Protein Interaction",
journal = j-J-COMPUT-BIOL,
volume = "24",
number = "12",
pages = "1275--1283",
month = dec,
year = "2017",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:09 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 November 2017",
}
@Article{He:2018:SIP,
author = "Jing He and Kamal {Al Nasr} and Weitao Sun and
Yonggang Lu",
title = "{{\em Special Issue\/}} Preface: The {9th
Computational Structural Bioinformatics Workshop}",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "1--2",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.29010.jh",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.29010.jh",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 January 2018",
}
@Article{Abella:2018:MED,
author = "Jayvee R. Abella and Mark Moll and Lydia E. Kavraki",
title = "Maintaining and Enhancing Diversity of Sampled Protein
Conformations in Robotics-Inspired Methods",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "3--20",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0164",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0164;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0164",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2017",
}
@Article{AlNasr:2018:PFC,
author = "Kamal {Al Nasr} and Christopher Jones and Feras Yousef
and Ruba Jebril",
title = "{\em {{PEM-fitter}}\/}: a Coarse-Grained Method to
Validate Protein Candidate Models",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "21--32",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0191",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0191;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0191",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 November 2017",
}
@Article{Maximova:2018:SBM,
author = "Tatiana Maximova and Zijing Zhang and Daniel B. Carr
and Erion Plaku and Amarda Shehu",
title = "Sample-Based Models of Protein Energy Landscapes and
Slow Structural Rearrangements",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "33--50",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0158",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0158;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0158",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 November 2017",
}
@Article{Clement:2018:VCA,
author = "Nathan Clement and Muhibur Rasheed and Chandrajit Lal
Bajaj",
title = "Viral Capsid Assembly: a Quantified Uncertainty
Approach",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "51--71",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0218",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0218;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0218",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 January 2018",
}
@Article{Kim:2018:SPR,
author = "Jin Seob Kim and Gregory S. Chirikjian",
title = "Symmetrical Parameterization of Rigid Body
Transformations for Biomolecular Structures",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "72--88",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0166",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0166;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0166",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 November 2017",
}
@Article{Siderius:2018:MSM,
author = "Michael Siderius and Filip Jagodzinski",
title = "Mutation Sensitivity Maps: Identifying Residue
Substitutions That Impact Protein Structure Via a
Rigidity Analysis In Silico Mutation Approach",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "89--102",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2017",
}
@Article{Sun:2018:RBL,
author = "Weitao Sun",
title = "The Relationship Between Low-Frequency Motions and
Community Structure of Residue Network in Protein
Molecules",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "103--113",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 September 2017",
}
@Article{Islam:2018:QTC,
author = "Tunazzina Islam and Michael Poteat and Jing He",
title = "Quantification of Twist from the Central Lines of $
\beta $-Strands",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "1",
pages = "114--120",
month = jan,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:12 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0174;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0174",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 January 2018",
}
@Article{Altschul:2018:ICA,
author = "Stephen F. Altschul and Andrew F. Neuwald",
title = "Initial Cluster Analysis",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "121--129",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0050",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0050;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0050",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 August 2017",
}
@Article{Park:2018:ANI,
author = "Heewon Park and Teppei Shimamura and Seiya Imoto and
Satoru Miyano",
title = "Adaptive {NetworkProfiler} for Identifying Cancer
Characteristic-Specific Gene Regulatory Networks",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "130--145",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0120",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0120;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0120",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2017",
}
@Article{He:2018:ALM,
author = "Jin-Hua He and Ze-Ping Han and Mao-Xian Zou and Li
Wang and Yu Bing Lv and Jia Bin Zhou and Ming-Rong Cao
and Yu-Guang Li",
title = "Analyzing the {LncRNA}, {miRNA}, and {mRNA} Regulatory
Network in Prostate Cancer with Bioinformatics
Software",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "146--157",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0093",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0093;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0093",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 August 2017",
}
@Article{Yang:2018:CTL,
author = "Cheng-Hong Yang and Yi-Cheng Chiang and Li-Yeh Chuang
and Yu-Da Lin",
title = "A {CpGCluster-Teaching--Learning-Based} Optimization
for Prediction of {CpG} Islands in the Human Genome",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "158--169",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2016.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2016.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2016.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 October 2017",
}
@Article{Morad:2018:SAI,
author = "Fatima A. Morad and Omran M. Rashidi and Saida S.
Sadath and Faisal A. Al-Allaf and Mohammad Athar and
Mohamed N. Alama and Sherif E. Edris and Nabeel S.
Bondagji and Noor A. Shaik and Babajan Banaganapalli
and Zuhier Awan",
title = "In Silico Approach to Investigate the Structural and
Functional Attributes of Familial Hypercholesterolemia
Variants Reported in the {Saudi} Population",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "170--181",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0018",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0018;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0018",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 November 2017",
}
@Article{Rahman:2018:HNA,
author = "Mohammad S. Rahman and Ann E. Nicholson and Gholamreza
Haffari",
title = "{HetFHMM}: a Novel Approach to Infer Tumor
Heterogeneity Using Factorial Hidden {Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "182--193",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0101;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0101",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2017",
}
@Article{Costa:2018:MGF,
author = "Evaldo Bezerra Costa",
title = "{MELC} Genomics: a Framework for {De} {Novo} Genome
Assembly",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "194--199",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 October 2017",
}
@Article{Vilaplana:2018:MED,
author = "Jordi Vilaplana and Rui Alves and Francesc Solsona and
Jordi Mateo and Ivan Teixid{\'o} and Marc Pifarr{\'e}",
title = "{MetReS}, an Efficient Database for Genomic
Applications",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "200--213",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2017",
}
@Article{Benshahar:2018:BAR,
author = "Arnon Benshahar and Vered Chalifa-Caspi and Danny
Hermelin and Michal Ziv-Ukelson",
title = "A Biclique Approach to Reference-Anchored Gene Blocks
and Its Applications to Genomic Islands",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "214--235",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0108;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0108",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 October 2017",
}
@Article{Kanj:2018:SNN,
author = "Sawsan Kanj and Thomas Br{\"u}ls and St{\'e}phane
Gazut",
title = "Shared Nearest Neighbor Clustering in a Locality
Sensitive Hashing Framework",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "2",
pages = "236--250",
month = feb,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:14 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/hash.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 September 2017",
}
@Article{Cai:2018:SIP,
author = "Zhipeng Cai and Pavel Skums and Alexander Zelikovsky",
title = "{{\em Special Issue\/}} Preface: {13th International
Symposium on Bioinformatics Research and Applications
(ISBRA 2017)}",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "251--252",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.29012.zc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.29012.zc",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 March 2018",
}
@Article{Chang:2018:ROA,
author = "Kuang-Yu Chang and Yun Cui and Siu-Ming Yiu and
Wing-Kai Hon",
title = "Reconstructing One-Articulated Networks with Distance
Matrices",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "253--269",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0148",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0148;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0148",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 October 2017",
}
@Article{Wang:2018:IMI,
author = "Zihao Wang and Yu Chen and Jingrong Zhang and Lun Li
and Xiaohua Wan and Zhiyong Liu and Fei Sun and Fa
Zhang",
title = "{ICON-MIC}: Implementing a {CPU\slash MIC}
Collaboration Parallel Framework for {ICON} on
{Tianhe-2} Supercomputer",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "270--281",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/super.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2017",
}
@Article{Ciach:2018:ERR,
author = "Micha{\l} Aleksander Ciach and Mateusz Krzysztof
{\L}{\k{a}}cki and B{\l}a{\.z}ej Miasojedow and
Frederik Lermyte and Dirk Valkenborg and Frank Sobott
and Anna Gambin",
title = "Estimation of Rates of Reactions Triggered by Electron
Transfer in Top-Down Mass Spectrometry",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "282--301",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 September 2017",
}
@Article{Xia:2018:MSP,
author = "Ruofan Xia and Yu Lin and Jun Zhou and Bing Feng and
Jijun Tang",
title = "A Median Solver and Phylogenetic Inference Based on
Double-Cut-and-Join Sorting",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "302--312",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2017",
}
@Article{Mishra:2018:CNN,
author = "Rashika Mishra and Ovidiu Daescu and Patrick Leavey
and Dinesh Rakheja and Anita Sengupta",
title = "Convolutional Neural Network for Histopathological
Analysis of Osteosarcoma",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "313--325",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0153",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0153;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0153",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2017",
}
@Article{Ng:2018:BBD,
author = "Albert Ng and Dong Si",
title = "Beta-Barrel Detection for Medium Resolution
Cryo-Electron Microscopy Density Maps Using Genetic
Algorithms and Ray Tracing",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "326--336",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2017",
}
@Article{Xiao:2018:OMB,
author = "Xiuchun Xiao and Bing Liu and Jing Zhang and Xueli
Xiao and Yi Pan",
title = "An Optimized Method for {Bayesian} Connectivity Change
Point Model",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "337--347",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0154;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2017",
}
@Article{Fosso:2018:UTA,
author = "Bruno Fosso and Graziano Pesole and Francesc
Rossell{\'o} and Gabriel Valiente",
title = "Unbiased Taxonomic Annotation of Metagenomic Samples",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "348--360",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 October 2017",
}
@Article{Wang:2018:CBM,
author = "Lei Wang and Zhu-Hong You and Xing Chen and Shi-Xiong
Xia and Feng Liu and Xin Yan and Yong Zhou and Ke-Jian
Song",
title = "A Computational-Based Method for Predicting
Drug-Target Interactions by Using Stacked Autoencoder
Deep Neural Network",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "3",
pages = "361--373",
month = mar,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:16 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0135;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0135",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 September 2017",
}
@Article{Jelovic:2018:FSS,
author = "Ana M. Jelovic and Nenad S. Mitic and Samira Eshafah
and Milos V. Beljanski",
title = "Finding Statistically Significant Repeats in Nucleic
Acids and Proteins",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "375--387",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0046",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0046;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0046",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 December 2017",
}
@Article{Wang:2018:SFS,
author = "Hong Wang and Xiaolin Chen and Gang Li",
title = "Survival Forests with {$R$}-Squared Splitting Rules",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "388--395",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0107;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0107",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 December 2017",
}
@Article{Li:2018:MMH,
author = "Lingling Li and Tianhai Tian and Xinan Zhang",
title = "Mutation Mechanisms of Human Breast Cancer",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "396--404",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0111",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0111;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0111",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 December 2017",
}
@Article{Huang:2018:NRT,
author = "Hsin-Hsiung Huang and Senthil B. Girimurugan",
title = "A Novel Real-Time Genome Comparison Method Using
Discrete Wavelet Transform",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "405--416",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 December 2017",
}
@Article{Ahn:2018:PIA,
author = "Jaeil Ahn and Brian Conkright and Simina M. Boca and
Subha Madhavan",
title = "{POPSTR}: Inference of Admixed Population Structure
Based on Single-Nucleotide Polymorphisms and Copy
Number Variations",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "417--429",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0127",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0127;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0127",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 January 2018",
}
@Article{Kist:2018:DMP,
author = "Andreas M. Kist and Angelika Lampert and Andrias O.
O'Reilly",
title = "{DIsulfide} Mapping {PLanner} Software Tool",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "430--434",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2017",
}
@Article{Fan:2018:PCN,
author = "Jun Fan and Jing Yang and Zhenran Jiang",
title = "Prediction of Central Nervous System Side Effects
Through Drug Permeability to Blood--Brain Barrier and
Recommendation Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "435--443",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2017",
}
@Article{Minarsky:2018:TM,
author = "Andrey Minarsky and Nadya Morozova and Robert Penner
and Christophe Soul{\'e}",
title = "Theory of Morphogenesis",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "444--450",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0150",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0150;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0150",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2017",
}
@Article{Ligabue-Braun:2018:EPR,
author = "Rodrigo Ligabue-Braun and Bruno Borguesan and Hugo
Verli and Mathias J. Krause and M{\'a}rcio Dorn",
title = "Everyone Is a Protagonist: Residue Conformational
Preferences in High-Resolution Protein Structures",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "4",
pages = "451--465",
month = apr,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0182",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:19 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0182;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0182",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 December 2017",
}
@Article{Sun:2018:ASB,
author = "Chen Sun and Robert S. Harris and Rayan Chikhi and
Paul Medvedev",
title = "{AllSome} Sequence {Bloom} Trees",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "467--479",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2018",
}
@Article{Fonseca-Junior:2018:PNB,
author = "N{\'e}li J. Fonseca-J{\'u}nior and Marcelo Q. L.
Afonso and Lucas C. Oliveira and Lucas Bleicher",
title = "{PFstats}: a Network-Based Open Tool for Protein
Family Analysis",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "480--486",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0181;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 February 2018",
}
@Article{Guo:2018:AAP,
author = "Qianghui Guo and Jian Wang and Zhao Xu",
title = "Approximation Algorithms for Protein Folding in the
Hydrophobic-Polar Model on {$3$D} Hexagonal Prism
Lattice",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "487--498",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 April 2018",
}
@Article{Xu:2018:PPP,
author = "Yang Xu and Xiao-Chun Luo",
title = "{PyPathway}: {Python} Package for Biological Network
Analysis and Visualization",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "499--504",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/python.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2018",
}
@Article{Moskon:2018:GAV,
author = "Miha Mo{\v{s}}kon and Nikolaj Zimic and Miha Mraz",
title = "Grohar: Automated Visualization of Genome-Scale
Metabolic Models and Their Pathways",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "505--508",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 February 2018",
}
@Article{Wu:2018:RRE,
author = "Shuangyang Wu and Wanfei Liu and Hasan Awad Aljohi and
Sarah A. Alromaih and Ibrahim O. Alanazi and Qiang Lin
and Jun Yu and Songnian Hu",
title = "{REDO}: {RNA} Editing Detection in Plant Organelles
Based on Variant Calling Results",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "509--516",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0214",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0214;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0214",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2018",
}
@Article{Fischer:2018:SRA,
author = "Carlos N. Fischer and Victor {De A.Campos} and Victor
H. Barella",
title = "On the Search for Retrotransposons: Alternative
Protocols to Obtain Sequences to Learn Profile Hidden
{Markov} Models",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "5",
pages = "517--527",
month = may,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0219",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:21 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0219;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0219",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2018",
}
@Article{Zhao:2018:SAA,
author = "Yongan Zhao and Xiaofeng Wang and Haixu Tang",
title = "A Secure Alignment Algorithm for Mapping Short Reads
to Human Genome",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "529--540",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0094",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0094;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0094",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2018",
}
@Article{Vexler:2018:TTV,
author = "Albert Vexler and Jihnhee Yu",
title = "To $t$-Test or Not to $t$-Test? {A} $p$-Values-Based
Point of View in the Receiver Operating Characteristic
Curve Framework",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "541--550",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0216",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0216;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0216",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 April 2018",
}
@Article{Zeng:2018:GWA,
author = "Lu Zeng and Stephen M. Pederson and Danfeng Cao and
Zhipeng Qu and Zhiqiang Hu and David L. Adelson and
Chaochun Wei",
title = "Genome-Wide Analysis of the Association of
Transposable Elements with Gene Regulation Suggests
that \bioname{Alu} Elements Have the Largest Overall
Regulatory Impact",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "551--562",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0228",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0228;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0228",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 April 2018",
}
@Article{Wang:2018:SLS,
author = "Xiaodong Wang and Lei Wang",
title = "A Simple Linear Space Algorithm for Computing
Nonoverlapping Inversion and Transposition Distance in
Quadratic Average Time",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "563--575",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0257",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0257;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0257",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2018",
}
@Article{Dong:2018:CTG,
author = "Yan Dong and Hongbao Cao and Zhigang Liang",
title = "A Curated Target Gene Pool Assisting Early Disease
Prediction and Patient-Specific Treatment for Small
Cell Lung Cancer",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "576--585",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0071",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0071;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0071",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2018",
}
@Article{Liu:2018:MPP,
author = "Lizhen Liu and Xiaowu Sun and Wei Song and Chao Du",
title = "A Method for Predicting Protein Complexes from Dynamic
Weighted Protein--Protein Interaction Networks",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "586--605",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 April 2018",
}
@Article{Lawhorn:2018:SCA,
author = "Chelsea M. Lawhorn and Rachel Schomaker and Jonathan
T. Rowell and Olav Rueppell",
title = "Simple Comparative Analyses of Differentially
Expressed Gene Lists {May} Overestimate Gene Overlap",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "606--612",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0262",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0262;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0262",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2018",
}
@Article{Boenn:2018:SSS,
author = "Markus Boenn",
title = "{ShRangeSim}: Simulation of Single Nucleotide
Polymorphism Clusters in Next-Generation Sequencing
Data",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "6",
pages = "613--622",
month = jun,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0007",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:23 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0007;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0007",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2018",
}
@Article{Sahinalp:2018:PSA,
author = "Cenk Sahinalp",
title = "Preface: Selected Articles from {RECOMB 2017}",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "623--623",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.29017.cs",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.29017.cs",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2018",
}
@Article{Rajaraman:2018:TRA,
author = "Ashok Rajaraman and Jian Ma",
title = "Toward Recovering Allele-specific Cancer Genome
Graphs",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "624--636",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2018",
}
@Article{Ahn:2018:ABM,
author = "Soyeon Ahn and Haris Vikalo",
title = "{aBayesQR}: a {Bayesian} Method for Reconstruction of
Viral Populations Characterized by Low Diversity",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "637--648",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 February 2018",
}
@Article{Paten:2018:SUC,
author = "Benedict Paten and Jordan M. Eizenga and Yohei M.
Rosen and Adam M. Novak and Erik Garrison and Glenn
Hickey",
title = "Superbubbles, Ultrabubbles, and Cacti",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "649--663",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0251;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0251",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 February 2018",
}
@Article{Haussler:2018:FPL,
author = "David Haussler and Maciej Smuga-Otto and Jordan M.
Eizenga and Benedict Paten and Adam M. Novak and Sergei
Nikitin and Maria Zueva and Dmitrii Miagkov",
title = "A Flow Procedure for Linearization of Genome Sequence
Graphs",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "664--676",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0248",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0248;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0248",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 May 2018",
}
@Article{Popic:2018:FMB,
author = "Victoria Popic and Volodymyr Kuleshov and Michael
Snyder and Serafim Batzoglou",
title = "Fast Metagenomic Binning via Hashing and {Bayesian}
Clustering",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "677--688",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0250",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/hash.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0250;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0250",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2018",
}
@Article{Zaccaria:2018:PCN,
author = "Simone Zaccaria and Mohammed El-Kebir and Gunnar W.
Klau and Benjamin J. Raphael",
title = "Phylogenetic Copy-Number Factorization of Multiple
Tumor Samples",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "689--708",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2018",
}
@Article{Ness:2018:BAL,
author = "Robert O. Ness and Karen Sachs and Parag Mallick and
Olga Vitek",
title = "A {Bayesian} Active Learning Experimental Design for
Inferring Signaling Networks",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "709--725",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0247",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0247;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0247",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2018",
}
@Article{Ojewole:2018:BBB,
author = "Adegoke A. Ojewole and Jonathan D. Jou and Vance G.
Fowler and Bruce R. Donald",
title = "{{\em BBK* (Branch and Bound Over K*)\/}}: a Provable
and Efficient Ensemble-Based Protein Design Algorithm
to Optimize Stability and Binding Affinity Over Large
Sequence Spaces",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "726--739",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0267",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0267;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0267",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 March 2018",
}
@Article{Jansson:2018:DCR,
author = "Jesper Jansson and Andrzej Lingas and Ramesh Rajaby
and Wing-Kin Sung",
title = "Determining the Consistency of Resolved Triplets and
Fan Triplets",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "740--754",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0256",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0256;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0256",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 February 2018",
}
@Article{Solomon:2018:ISL,
author = "Brad Solomon and Carl Kingsford",
title = "Improved Search of Large Transcriptomic Sequencing
Databases Using Split Sequence {Bloom} Trees",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "755--765",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0265;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0265",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 March 2018",
}
@Article{Jain:2018:FAA,
author = "Chirag Jain and Alexander Dilthey and Sergey Koren and
Srinivas Aluru and Adam M. Phillippy",
title = "A Fast Approximate Algorithm for Mapping Long Reads to
Large Reference Databases",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "766--779",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0036",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0036;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0036",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 April 2018",
}
@Article{DeBlasio:2018:ALR,
author = "Dan DeBlasio and John Kececioglu",
title = "Adaptive Local Realignment of Protein Sequences",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "780--793",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0045",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0045;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0045",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2018",
}
@Article{Schweiger:2018:USA,
author = "Regev Schweiger and Eyal Fisher and Elior Rahmani and
Liat Shenhav and Saharon Rosset and Eran Halperin",
title = "Using Stochastic Approximation Techniques to
Efficiently Construct Confidence Intervals for
Heritability",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "794--808",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0047",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0047;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0047",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 June 2018",
}
@Article{Wang:2018:LGP,
author = "Xiaoqian Wang and Jingwen Yan and Xiaohui Yao and
Sungeun Kim and Kwangsik Nho and Shannon L. Risacher
and Andrew J. Saykin and Li Shen and Heng Huang",
title = "Longitudinal Genotype--Phenotype Association Study
through Temporal Structure Auto-Learning Predictive
Model",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "809--824",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2018",
}
@Article{Holley:2018:DAF,
author = "Guillaume Holley and Roland Wittler and Jens Stoye and
Faraz Hach",
title = "Dynamic Alignment-Free and Reference-Free Read
Compression",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "7",
pages = "825--836",
month = jul,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0068",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:25 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0068;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0068",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2018",
}
@Article{Vega-Rodriguez:2018:PSI,
author = "Miguel A. Vega-Rodr{\'\i}guez and Jos{\'e} M.
Granado-Criado",
title = "{{\em Preface to the Special Issue\/}}: Parallel
Computing in Computational Biology: a Technological
Point of View",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "837--840",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.29018.mavr",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.29018.mavr;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.29018.mavr",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2018",
}
@Article{Perez-Wohlfeil:2018:PPP,
author = "Esteban P{\'e}rez-Wohlfeil and Oswaldo Trelles",
title = "Precise and Parallel Pairwise Metagenomic
Comparisons",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "841--849",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0081",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0081;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0081",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 August 2018",
}
@Article{Teixeira:2018:LSS,
author = "Andreia Sofia Teixeira and Pedro T. Monteiro and
Jo{\~a}o A. Carri{\c{c}}o and Francisco C. Santos and
Alexandre P. Francisco",
title = "Large-Scale Simulations of Bacterial Populations Over
Complex Networks",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "850--861",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0083",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0083;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0083",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 July 2018",
}
@Article{Martinez:2018:FLT,
author = "H{\'e}ctor Mart{\'\i}nez and Sergio Barrachina and
Maribel Castillo and Enrique S. Quintana-Ort{\'i} and
Jordi Rambla de Argila and Xavier Farr{\'e} and Arcadi
Navarro",
title = "{FaST-LMM} for Two-Way Epistasis Tests on
High-Performance Clusters",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "862--870",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0087;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0087",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 July 2018",
}
@Article{Nowicki:2018:MPI,
author = "Marek Nowicki and Davit Bzhalava and Piotr Ba{\l}a",
title = "Massively Parallel Implementation of Sequence
Alignment with Basic Local Alignment Search Tool Using
Parallel Computing in {Java} Library",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "871--881",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0079",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/java2010.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0079;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0079",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 July 2018",
}
@Article{Escobar:2018:PPP,
author = "Juan Jos{\'e} Escobar and Julio Ortega and Antonio
Francisco D{\'\i}az and Jes{\'u}s Gonz{\'a}lez and
Miguel Damas",
title = "A Power--Performance Perspective to Multiobjective
Electroencephalogram Feature Selection on Heterogeneous
Parallel Platforms",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "882--893",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0080",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0080;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0080",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 June 2018",
}
@Article{Llados:2018:SCC,
author = "Jordi Llad{\'o}s and Fernando Cores and Fernando
Guirado",
title = "Scalable Consistency in {T}-Coffee Through {Apache
Spark} and {Cassandra} Database",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "894--906",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0084;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0084",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 July 2018",
}
@Article{Wen:2018:SGI,
author = "Jian-Xin Wen and Xiao-Qin Li and Yu Chang",
title = "Signature Gene Identification of Cancer Occurrence and
Pattern Recognition",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "907--916",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0261;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0261",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 June 2018",
}
@Article{Rosati:2018:EMS,
author = "Elise Rosati and Morgan Madec and Jean-Baptiste
Kammerer and Luc H{\'e}brard and Christophe Lallement
and Jacques Haiech",
title = "Efficient Modeling and Simulation of Space-Dependent
Biological Systems",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "917--933",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0012",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0012;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0012",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 May 2018",
}
@Article{Pang:2018:CAC,
author = "Fengqian Pang and Heng Li and Yonggang Shi and Zhiwen
Liu",
title = "Computational Analysis of Cell Dynamics in Videos with
Hierarchical-Pooled Deep-Convolutional Features",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "934--953",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0023",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0023;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0023",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 April 2018",
}
@Article{Naito:2018:HSS,
author = "Tatsuhiko Naito",
title = "Human Splice-Site Prediction with Deep Neural
Networks",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "8",
pages = "954--961",
month = aug,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:28 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0041;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0041",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 April 2018",
}
@Article{Zhao:2018:DPE,
author = "Jian Zhao and Jiasong Wang and Hongmei Jiang",
title = "Detecting Periodicities in Eukaryotic Genomes by
{Ramanujan} {Fourier} Transform",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "963--975",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0252",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0252;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0252",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 July 2018",
}
@Article{Fukunaga:2018:NMA,
author = "Tsukasa Fukunaga and Michiaki Hamada",
title = "A Novel Method for Assessing the Statistical
Significance of {RNA-RNA} Interactions Between Two Long
{RNAs}",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "976--986",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0260",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0260;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0260",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 July 2018",
}
@Article{Kim:2018:EDS,
author = "Yoonji Kim and Jaejik Kim",
title = "Estimation of Dynamic Systems for Gene Regulatory
Networks from Dependent Time-Course Data",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "987--996",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0062",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0062;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0062",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2018",
}
@Article{Kumari:2018:PRP,
author = "Bandana Kumari and Ravindra Kumar and Manish Kumar",
title = "Prediction of Rare Palmitoylation Events in Proteins",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "997--1008",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0069;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0069",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 July 2018",
}
@Article{Rubio-Largo:2018:PMM,
author = "{\'A}lvaro Rubio-Largo and Mauro Castelli and Leonardo
Vanneschi and Miguel A. Vega-Rodr{\'\i}guez",
title = "A Parallel Multiobjective Metaheuristic for Multiple
Sequence Alignment",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "1009--1022",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 April 2018",
}
@Article{Atitey:2018:DTR,
author = "Komlan Atitey and Pavel Loskot and Paul Rees",
title = "Determining the Transcription Rates Yielding
Steady-State Production of {mRNA} in the \bioname{Lac}
Genetic Switch of \bioname{Escherichia coli}",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "1023--1039",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0055",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0055;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0055",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 June 2018",
}
@Article{Larson:2018:ISN,
author = "Nicholas B. Larson and Chen Wang and Jie Na and Ross
A. Rowsey and William Edward Highsmith and Nicole L.
Hoppman and Jean-Pierre Kocher and Eric W. Klee",
title = "Improving Single-Nucleotide Polymorphism-Based Fetal
Fraction Estimation of Maternal Plasma Circulating
Cell-Free {DNA} Using {Bayesian} Hierarchical Models",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "1040--1049",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0056;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0056",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 June 2018",
}
@Article{Huang:2018:AMW,
author = "Xinrui Huang and Sha Li and Song Gao",
title = "Applying a Modified Wavelet Shrinkage Filter to
Improve Cryo-Electron Microscopy Imaging",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "1050--1058",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0060",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0060;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0060",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2018",
}
@Article{Park:2018:SMB,
author = "Joonyeon Park and Myeongji Cho and Hyeon S. Son",
title = "Simulation Model of Bacterial Resistance to
Antibiotics Using Individual-Based Modeling",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "9",
pages = "1059--1070",
month = sep,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:30 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2018",
}
@Article{Bao:2018:ACR,
author = "Yu Bao and Morihiro Hayashida and Pengyu Liu and
Masayuki Ishitsuka and Jose C. Nacher and Tatsuya
Akutsu",
title = "Analysis of Critical and Redundant Vertices in
Controlling Directed Complex Networks Using Feedback
Vertex Sets",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1071--1090",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0019",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0019;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0019",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 August 2018",
}
@Article{Beretta:2018:IEA,
author = "Stefano Beretta and Mauro Castelli and Ivo
Gon{\c{c}}alves and Ivan Kel and Valentina Giansanti
and Ivan Merelli",
title = "Improving {eQTL} Analysis Using a Machine Learning
Approach for Data Integration: a Logistic Model Tree
Solution",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1091--1105",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0167",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0167;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0167",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 July 2018",
}
@Article{Palkowski:2018:PTC,
author = "Marek Palkowski and Wlodzimierz Bielecki",
title = "Parallel Tiled Codes Implementing the
{Smith--Waterman} Alignment Algorithm for Two and Three
Sequences",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1106--1119",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0006",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0006;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0006",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 July 2018",
}
@Article{Kosesoy:2018:PWS,
author = "{\.I}rfan K{\"o}sesoy and Murat G{\"o}k and Cemil
{\"O}z",
title = "{PROSES}: a {Web} Server for Sequence-Based Protein
Encoding",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1120--1122",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0049",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0049;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0049",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 July 2018",
}
@Article{Wang:2018:MPC,
author = "Shisheng Wang and Wen Zheng and Liqiang Hu and Meng
Gong and Hao Yang",
title = "{MixProTool}: a Powerful and Comprehensive {Web} Tool
for Analyzing and Visualizing Multigroup Proteomics
Data",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1123--1127",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0050",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0050;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0050",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 July 2018",
}
@Article{Chen:2018:DCN,
author = "Jie Chen and Shirong Deng",
title = "Detection of Copy Number Variation Regions Using the
{DNA-Sequencing} Data from Multiple Profiles with
Correlated Structure",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1128--1140",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0053",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0053;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0053",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 July 2018",
}
@Article{Voges:2018:TLS,
author = "Jan Voges and Ali Fotouhi and J{\"o}rn Ostermann and
Muhammed O{\u{g}}uzhan K{\"u}lekci",
title = "A Two-Level Scheme for Quality Score Compression",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1141--1151",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0065;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0065",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2018",
}
@Article{Liu:2018:SWF,
author = "Qie Liu and Min Liu and Wenfa Wu",
title = "Strong/Weak Feature Recognition of Promoters Based on
Position Weight Matrix and Ensemble Set-Valued Models",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1152--1160",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0067",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0067;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0067",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 July 2018",
}
@Article{Wang:2018:MSG,
author = "Xuedong Wang and Wenhui Shang and Yu Chang and Xiaoqin
Li",
title = "Methylation Signature Genes Identification of the Lung
Squamous Cell Carcinoma Occurrence and Recognition
Research",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "10",
pages = "1161--1169",
month = oct,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:32 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0069;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0069",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2018",
}
@Article{Orenstein:2018:JBC,
author = "Yaron Orenstein and Yun William Yu and Bonnie Berger",
title = "{Joker de Bruijn}: Covering $k$-Mers Using Joker
Characters",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1171--1178",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0032;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0032",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2018",
}
@Article{Barrett:2018:EDS,
author = "Christopher Barrett and Qijun He and Fenix W. Huang
and Christian M. Reidys",
title = "An Efficient Dual Sampling Algorithm with {Hamming}
Distance Filtration",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1179--1192",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0075",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0075;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0075",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Zhou:2018:EDB,
author = "Xinrui Zhou and Amihood Amir and Concettina Guerra and
Gadi Landau and Jarek Rossignac",
title = "{EDoP} Distance Between Sets of Incomplete
Permutations: Application to Bacteria Classification
Based on Gene Order",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1193--1202",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0063;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0063",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2018",
}
@Article{Alexeev:2018:CSP,
author = "Nikita Alexeev and Max A. Alekseyev",
title = "Combinatorial Scoring of Phylogenetic Trees and
Networks Based on Homoplasy-Free Characters",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1203--1219",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0082",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0082;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0082",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Alexandrov:2018:TEM,
author = "Theodore Alexandrov and Nina Golyandina and David
Holloway and Alex Shlemov and Alexander Spirov",
title = "Two-Exponential Models of Gene Expression Patterns for
Noisy Experimental Data",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1220--1230",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0063;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0063",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2018",
}
@Article{Sorooshyari:2018:PMP,
author = "Siamak K. Sorooshyari and Matthew P. Taylor and H.
Vincent Poor",
title = "Probabilistic Modeling of Pseudorabies Virus Infection
in a Neural Circuit",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1231--1246",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0131",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0131;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0131",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Yousefian-Jazi:2018:SIF,
author = "Ali Yousefian-Jazi and Jinwook Choi",
title = "Sequential Integration of Fuzzy Clustering and
Expectation Maximization for Transcription Factor
Binding Site Identification",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1247--1256",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0230",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0230;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0230",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Tambonis:2018:DEA,
author = "Tiago Tambonis and Marcelo Boareto and Vitor B. P.
Leite",
title = "Differential Expression Analysis in {RNA-seq} Data
Using a Geometric Approach",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1257--1265",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Yang:2018:ISB,
author = "Hui Yang and Hao Lv and Hui Ding and Wei Chen and Hao
Lin",
title = "{iRNA-2OM}: a Sequence-Based Predictor for Identifying
{2'-O}-Methylation Sites in \bioname{Homo sapiens}",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1266--1277",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0004",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0004;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0004",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2018",
}
@Article{Osmankovic:2018:NAD,
author = "Dinko Osmankovic and Semir Doric and Naris Pojskic and
Lada Lukic Bilela",
title = "New Approach to Detect Coiled Coil and Leucine Zipper
Motifs in Protein Sequences",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "11",
pages = "1278--1283",
month = nov,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0104",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:35 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0104;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0104",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 August 2018",
}
@Article{Costa:2018:SMS,
author = "Jos{\'e} M. J. Costa and Helcio R. B. Orlande and
Viviane O. F. Lione and Antonio G. F. Lima and
Tayn{\'a} C. S. Cardoso and Leonardo A. B. Var{\'o}n",
title = "Simultaneous Model Selection and Model Calibration for
the Proliferation of Tumor and Normal Cells During In
Vitro Chemotherapy Experiments",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1285--1300",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0130",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0130;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0130",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 September 2018",
}
@Article{Rangamaran:2018:ETI,
author = "Vijaya Raghavan Rangamaran and Bharathram Uppili and
Dharani Gopal and Kirubagaran Ramalingam",
title = "{EasyQC}: Tool with Interactive User Interface for
Efficient Next-Generation Sequencing Data Quality
Control",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1301--1311",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0186",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0186;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0186",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2018",
}
@Article{Yan:2018:ICT,
author = "Xiaoping Yan and Yu Huang and Jiabin Wu",
title = "Identify Cross Talk Between Circadian Rhythm and
Coronary Heart Disease by Multiple Correlation
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1312--1327",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0254",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0254;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0254",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 September 2018",
}
@Article{Santiago:2018:HDU,
author = "Caio Santiago and Vivian Pereira and Luciano
Digiampietri",
title = "Homology Detection Using Multilayer Maximum Clustering
Coefficient",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1328--1338",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0266",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0266;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0266",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 August 2018",
}
@Article{Werner:2018:LDP,
author = "Matthias Werner and Pascal Fieth and Alexander
Hartmann",
title = "Large-Deviation Properties of Sequence Alignment of
Correlated Sequences",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1339--1346",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0269;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0269",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 September 2018",
}
@Article{Wang:2018:MLB,
author = "Hsin-Yao Wang and Shih-Cheng Chang and Wan-Ying Lin
and Chun-Hsien Chen and Szu-Hsien Chiang and Kai-Yao
Huang and Bo-Yu Chu and Jang-Jih Lu and Tzong-Yi Lee",
title = "Machine Learning-Based Method for Obesity Risk
Evaluation Using Single-Nucleotide Polymorphisms
Derived from Next-Generation Sequencing",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1347--1360",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0002;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0002",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2018",
}
@Article{Yang:2018:DRR,
author = "Ming Yang and Louis Z. Yang",
title = "Determining a Reasonable Range of Relative Numerical
Tolerance Values for Simulating Deterministic Models of
Biochemical Reactions",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1361--1364",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0026",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0026;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0026",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 August 2018",
}
@Article{Lall:2018:SAP,
author = "Snehalika Lall and Debajyoti Sinha and Sanghamitra
Bandyopadhyay and Debarka Sengupta",
title = "Structure-Aware Principal Component Analysis for
Single-Cell {RNA-seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1365--1373",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0027",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0027;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0027",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Garren:2018:BTC,
author = "Jeonifer M. Garren and Jaejik Kim",
title = "Bootstrapping Time-Course Gene Expression Data for
Gene Networks: Application to Gene Relevance Networks",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1374--1384",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0029",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0029;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0029",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2018",
}
@Article{Liu:2018:PMD,
author = "Yue Liu and Shu-Lin Wang and Jun-Feng Zhang",
title = "Prediction of Microbe--Disease Associations by Graph
Regularized Non-Negative Matrix Factorization",
journal = j-J-COMPUT-BIOL,
volume = "25",
number = "12",
pages = "1385--1394",
month = dec,
year = "2018",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0072",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:37 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0072;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0072",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 August 2018",
}
@Article{Yang:2019:MMC,
author = "Yanshen Yang and Jeffrey A. Robertson and Zhen Guo and
Jake Martinez and Christy Coghlan and Lenwood S.
Heath",
title = "{MCAT}: Motif Combining and Association Tool",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "1--15",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0113;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0113",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 November 2018",
}
@Article{Surujon:2019:SWN,
author = "Defne Surujon and Yann Ponty and Peter Clote",
title = "Small-World Networks and {RNA} Secondary Structures",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "16--26",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 October 2018",
}
@Article{Avni:2019:NQB,
author = "Eliran Avni and Sagi Snir",
title = "A New Quartet-Based Statistical Method for Comparing
Sets of Gene Trees Is Developed Using a Generalized
{Hoeffding} Inequality",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "27--37",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 November 2018",
}
@Article{Duong:2019:WSE,
author = "Dat Duong and Wasi Uddin Ahmad and Eleazar Eskin and
Kai-Wei Chang and Jingyi Jessica Li",
title = "Word and Sentence Embedding Tools to Measure Semantic
Similarity of Gene Ontology Terms by Their
Definitions",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "38--52",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0093",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0093;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0093",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 October 2018",
}
@Article{Kavya:2019:SAD,
author = "Vaddadi Naga Sai Kavya and Kshitij Tayal and Rajgopal
Srinivasan and Naveen Sivadasan",
title = "Sequence Alignment on Directed Graphs",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "53--67",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2017.0264",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2017.0264;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2017.0264",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2018",
}
@Article{Fomin:2019:SAR,
author = "Eduard Fomin",
title = "A Simple Approach to the Reconstruction of a Set of
Points from the Multiset of Pairwise Distances in $ n^2
$ Steps for the Sequencing Problem: {III.} Noise Inputs
for the {Beltway} Case",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "68--75",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2018",
}
@Article{Mellem:2019:MMD,
author = "Daniel Mellem and Frank Fischer and S{\"o}ren Jaspers
and Horst Wenck and Michael R{\"u}bhausen",
title = "Mitochondrial Morphologies Driven by Energy-Consuming
Cell Sites in a Spatially and Time-Resolved Quality
Model",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "76--85",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0086",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0086;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0086",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 September 2018",
}
@Article{Lo:2019:IPL,
author = "Shih-Chiang Lo and Feng-You Liu and Wun-Sin Jhang and
Che-Chi Shu",
title = "The Insight into Protein-Ligand Interactions, a Novel
Way of Buffering Protein Noise in Gene Expression",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "86--95",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 September 2018",
}
@Article{Ta:2019:WIV,
author = "Michael Ta and Changchuan Yin and Gary Lee Smith and
Wenbo Xu",
title = "A Workflow to Improve Variant Calling Accuracy in
Molecular Barcoded Sequencing Reads",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "1",
pages = "96--103",
month = jan,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0110",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:39 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0110;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0110",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 August 2018",
}
@Article{Samykannu:2019:SCB,
author = "Gopinath Samykannu and Princy Vijayababu and Christian
Bharathi Antonyraj and Perumal Perumal and
Sundarabaalaji Narayanan and Syed Ibrahim Basheer
Ahamed and Jeyakumar Natarajan",
title = "In Silico Characterization of {B} Cell and {T} Cell
Epitopes for Subunit Vaccine Design of
\bioname{Salmonella typhi} {PgtE}: a Molecular Dynamics
Simulation Approach",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "2",
pages = "105--116",
month = feb,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 December 2018",
}
@Article{Kokas:2019:SNF,
author = "Filip Zavadil Kok{\'a}{\v{s}} and V{\'e}ronique
Bergougnoux and M{\'a}ria Majesk{\'a}
{\v{C}}udejkov{\'a}",
title = "{SATrans}: New Free Available Software for Annotation
of Transcriptome and Functional Analysis of
Differentially Expressed Genes",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "2",
pages = "117--123",
month = feb,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2018",
}
@Article{Ershov:2019:IHS,
author = "Vasily Ershov and Artem Tarasov and Alla Lapidus and
Anton Korobeynikov",
title = "{IonHammer}: Homopolymer-Space {Hamming} Clustering
for {IonTorrent} Read Error Correction",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "2",
pages = "124--127",
month = feb,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0152;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 October 2018",
}
@Article{Yang:2019:TDE,
author = "Sihai Yang and Xianhua Han and Yenwei Chen",
title = "Three-Dimensional Embryonic Image Segmentation and
Registration Based on Shape Index and Ellipsoid-Fitting
Method",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "2",
pages = "128--142",
month = feb,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2018",
}
@Article{Yin:2019:EDD,
author = "Changchuan Yin",
title = "Encoding and Decoding {DNA} Sequences by Integer Chaos
Game Representation",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "2",
pages = "143--151",
month = feb,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0173",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0173;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0173",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2018",
}
@Article{Uechi:2019:MAD,
author = "Lisa Uechi and David J. Galas and Nikita A.
Sakhanenko",
title = "Multivariate Analysis of Data Sets with Missing
Values: an Information Theory-Based Reliability
Function",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "2",
pages = "152--171",
month = feb,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:41 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0179;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0179",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2018",
}
@Article{Barrett:2019:BSP,
author = "Christopher Barrett and Qijun He and Fenix W. Huang
and Christian M. Reidys",
title = "A {Boltzmann} Sampler for $1$-Pairs with Double
Filtration",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "173--192",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0095",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0095;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0095",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2019",
}
@Article{Wang:2019:CNI,
author = "Xiaodong Wang and Lei Wang",
title = "Computing Nonoverlapping Inversion Distance Between
Two Strings in Linear Average Time",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "193--201",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0136",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0136;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0136",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 January 2019",
}
@Article{Park:2019:RSS,
author = "Heewon Park and Makoto Yamada and Seiya Imoto and
Satoru Miyano",
title = "Robust Sample-Specific Stability Selection with
Effective Error Control",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "202--217",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0180",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0180;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0180",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 January 2019",
}
@Article{Mao:2019:HDH,
author = "Xiaodan Mao and Yichen Xu and Zhenran Jiang",
title = "{HColonDB}: a Database for Human Colon Cancer
Research",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "218--224",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2019",
}
@Article{Viswanath:2019:IDI,
author = "bBiju Viswanath and Naren P. Rao and Janardhanan C.
Narayanaswamy and Palanimuthu T. Sivakumar and
Arunkandaswamy and Muralidharankesavan and
Urvakhsh-Meherwan Mehta and Ganesanvenkatasubramanian
and John P. John and Odity Mukherjee and
Meerapurushottam and Ramakrishnankannan and Bhupesh
Mehta and Thennarasukandavel and B. Binukumar and
Jitendersaini and Deepak Jayarajan and A. Shyamsundar
and Sydney Moirangthem and Kumar G. Vijay and
Jagadishathirthalli and Prabha S. Chandra and Bangalore
N. Gangadhar and Pratima Murthy and Mitradas M.
Panicker and Upinder S. Bhalla and Sumantrachattarji
and Vivekbenegal and Mathew Varghese and Janardhan Y.
C. Reddy and Padinjat Raghu and Mahendrarao and Sanjeev
Jain",
title = "{INDEX-db}: The {Indian Exome Reference Database
(Phase I)}",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "225--234",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0199",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0199;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0199",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 January 2019",
}
@Article{Piwowar:2019:DAM,
author = "Monika Piwowar and Tomasz Ku{\l}aga",
title = "Directional Association Measurement in Contingency
Tables: Genomic Case",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "235--240",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0202",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0202;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0202",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 December 2018",
}
@Article{Wang:2019:CMB,
author = "Yuandi Wang and Qingmei Wen and Zhigang Zhou and
Nanjun Yan",
title = "Cell Modeling Based on Bubbles with Weighted
Membranes",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "241--265",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0205",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0205;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0205",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 January 2019",
}
@Article{Solar:2019:SOP,
author = "Roberto Solar and Victor Sepulveda and Alonso
Inostrosa-Psijas and Oscar Rojas and Veronica Gil-Costa
and Mauricio Marin",
title = "A Service-Oriented Platform for Approximate {Bayesian}
Computation in Population Genetics",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "266--279",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0217;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 January 2019",
}
@Article{Kim:2019:MPP,
author = "Baekdoo Kim and Thahmina Ali and Changsu Dong and
Carlos Lijeron and Raja Mazumder and Claudia Wultsch
and Konstantinos Krampis",
title = "{{\em miCloud\/}}: a Plug-n-Play, Extensible,
On-Premises Bioinformatics Cloud for Seamless Execution
of Complex Next-Generation Sequencing Data Analysis
Pipelines",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "280--284",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0218",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0218;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0218",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2019",
}
@Article{Gunawan:2019:CPN,
author = "Andreas D. M. Gunawan and Hongwei Yan and Louxin
Zhang",
title = "Compression of Phylogenetic Networks and Algorithm for
the Tree Containment Problem",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "3",
pages = "285--294",
month = mar,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0220",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:44 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0220;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0220",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 January 2019",
}
@Article{Cho:2019:MDC,
author = "Soonweng Cho and Hyun-Seok Kim and Martha A. Zeiger
and Christopher B. Umbricht and Leslie M. Cope",
title = "Measuring {DNA} Copy Number Variation Using
High-Density Methylation Microarrays",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "295--304",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0143",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0143;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0143",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2019",
}
@Article{Zaborowski:2019:BEM,
author = "Rafa{\l} Zaborowski and Bartek Wilczy{\'n}ski",
title = "{BPscore}: an Effective Metric for Meaningful
Comparisons of Structural Chromosome Segmentations",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "305--314",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0162",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0162;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0162",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2019",
}
@Article{Wang:2019:PSC,
author = "Yi Wang and Kun Tian and Stephen S.-T. Yau",
title = "Protein Sequence Classification Using Natural Vector
and Convex Hull Method",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "315--321",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0216",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0216;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0216",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2019",
}
@Article{Urban:2019:DST,
author = "Paulina Urban and Vahid Rezaei and Grzegorz Bokota and
Micha{\l} Denkiewicz and Subhadip Basu and Dariusz
Plewczy{\'n}ski",
title = "Dendritic Spines Taxonomy: The Functional and
Structural Classification $ \bullet $ Time-Dependent
Probabilistic Model of Neuronal Activation",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "322--335",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2019",
}
@Article{Lee:2019:RBN,
author = "Kyu Min Lee and Minhyeok Lee and Junhee Seok and Sung
Won Han",
title = "Regression-Based Network Estimation for
High-Dimensional Genetic Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "336--349",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0225",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0225;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0225",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2019",
}
@Article{Ye:2019:STS,
author = "Yusong Ye and Zhuoqin Yang and Jinzhi Lei",
title = "Stochastic Telomere Shortening and the Route to
Limitless Replicative Potential",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "350--363",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0234",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0234;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0234",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2019",
}
@Article{Qi:2019:BAK,
author = "Yuewen Qi and Haowen Qi and Zeyuan Liu and Peiyuan He
and Bingqing Li",
title = "Bioinformatics Analysis of Key Genes and Pathways in
Colorectal Cancer",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "364--375",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0237;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0237",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2019",
}
@Article{Feltes:2019:CEC,
author = "Bruno C{\'e}sar Feltes and Eduardo Bassani Chandelier
and Bruno Iochins Grisci and M{\'a}rcio Dorn",
title = "{CuMiDa}: an Extensively Curated Microarray Database
for Benchmarking and Testing of Machine Learning
Approaches in Cancer Research",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "376--386",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0238",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0238;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0238",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2019",
}
@Article{Liu:2019:RSD,
author = "Huan Liu and Li Liu and Hong Zhu",
title = "The Role of Significantly Deregulated {MicroRNAs} in
Recurrent Cervical Cancer Based on Bioinformatic
Analysis of the Cancer Genome Atlas Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "387--395",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0241",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0241;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0241",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2019",
}
@Article{Marongiu:2019:MCL,
author = "Luigi Marongiu and Heike Allgayer",
title = "{Mingle}: a Command Line Utility for Merging
Multi-fasta Files",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "4",
pages = "396--404",
month = apr,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:46 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2019",
}
@Article{Kothiyal:2019:MIS,
author = "Prachi Kothiyal and Wendy S. W. Wong and Dale L.
Bodian and John E. Niederhuber",
title = "{Mendelian} Inconsistent Signatures from 1314
Ancestrally Diverse Family Trios Distinguish Biological
Variation from Sequencing Error",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "405--419",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 April 2019",
}
@Article{Oliveira:2019:SWR,
author = "Andre Rodrigues Oliveira and Klairton Lima Brito and
Zanoni Dias and Ulisses Dias",
title = "Sorting by Weighted Reversals and Transpositions",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "420--431",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0257",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0257;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0257",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2019",
}
@Article{Ahn:2019:RNB,
author = "Jaegyoon Ahn and Junhyeok Choi and Harrim Kim and
Jibum Kim",
title = "{RN$^+$}: a Novel Biclustering Algorithm for Analysis
of Gene Expression Data Using Protein--Protein
Interaction Network",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "432--441",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0003",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0003;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0003",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 February 2019",
}
@Article{Castro:2019:FPM,
author = "Guilherme Torres Castro and Luis Enrique Z{\'a}rate
and Cristiane Neri Nobre and Henrique Cota Freitas",
title = "A Fast Parallel {$K$}-Modes Algorithm for Clustering
Nucleotide Sequences to Predict Translation Initiation
Sites",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "442--456",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0245",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0245;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0245",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2019",
}
@Article{Ravi:2019:ENC,
author = "Guru Raj Rao Ravi and Jayashree Biswal and Sureka
Kanagarajan and Jeyaraman Jeyakanthan",
title = "Exploration of {N5-CAIR} Mutase Novel Inhibitors from
\bioname{Pyrococcus horikoshii} {OT3}: a Computational
Study",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "457--472",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0248",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0248;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0248",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2019",
}
@Article{Hu:2019:CMC,
author = "Xi Hu and Wenling Yi and Ling Jiang and Sijia Wu and
Yan Zhang and Jianqiang Du and Tianyou Ma and Tong Wang
and Xiaoming Wu",
title = "Classification of Metaphase Chromosomes Using Deep
Convolutional Neural Network",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "473--484",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0212",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0212;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0212",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 April 2019",
}
@Article{Chen:2019:IPK,
author = "Zide Chen and Jiehua Chen and Xuan Huang and Yi Wu and
Kuiyuan Huang and Weikang Xu and Linqing Xie and
Xiaoyong Zhang and Hongyan Liu",
title = "Identification of Potential Key Genes for Hepatitis
{B} Virus-Associated Hepatocellular Carcinoma by
Bioinformatics Analysis",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "485--494",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 March 2019",
}
@Article{Liang:2019:BDA,
author = "Wei Liang and Yuxiao Yang and Yusi Fang and Zhongying
Zhao and Jie Hu",
title = "{Bayesian} Detection of Abnormal Asynchrony of
Division Between Sister Cells in Mutant
\bioname{Caenorhabditis elegans} Embryos",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "5",
pages = "495--505",
month = may,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0246",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Jun 1 09:53:48 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0246;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0246",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 April 2019",
}
@Article{Diallo:2019:SPW,
author = "Abdoulaye Banir{\'e} Diallo and Engelbert Mephu Nguifo
and Wajdi Dhifli and Elham Azizi and Sandhya
Prabhakaran and Wesley Tansey",
title = "Selected Papers from the {Workshop on Computational
Biology: Joint with the International Joint Conference
on Artificial Intelligence and the International
Conference on Machine Learning, 2018}",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "507--508",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.29020.abd",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.29020.abd",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 June 2019",
}
@Article{Menegaux:2019:CED,
author = "Romain Menegaux and Jean-Philippe Vert",
title = "Continuous Embeddings of {DNA} Sequencing Reads and
Application to Metagenomics",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "509--518",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0174;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0174",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2019",
}
@Article{Lebatteux:2019:TAF,
author = "Dylan Lebatteux and Amine M. Remita and Abdoulaye
Banir{\'e} Diallo",
title = "Toward an Alignment-Free Method for Feature Extraction
and Accurate Classification of Viral Sequences",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "519--535",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0239",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0239;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0239",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2019",
}
@Article{Deac:2019:ACM,
author = "Andreea Deac and Petar Veli{\v{c}}kovi{\'c} and Pietro
Sormanni",
title = "Attentive Cross-Modal Paratope Prediction",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "536--545",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0175",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0175;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0175",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 December 2018",
}
@Article{Moretti:2019:ATF,
author = "Antonio Moretti and Andrew Stirn and Gabriel Marks and
Itsik Pe'er",
title = "Autoencoding Topographic Factors",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "546--560",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0176",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0176;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0176",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 December 2018",
}
@Article{Saidi:2019:EMR,
author = "Rabie Saidi and Wajdi Dhifli and Mondher Maddouri and
Engelbert Mephu Nguifo",
title = "Efficiently Mining Recurrent Substructures from
Protein Three-Dimensional Structure Graphs",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "561--571",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2018",
}
@Article{Eghbal-Zadeh:2019:DEE,
author = "Hamid Eghbal-Zadeh and Lukas Fischer and Niko Popitsch
and Florian Kromp and Sabine Taschner-Mandl and Teresa
Gerber and Eva Bozsaky and Peter F. Ambros and Inge M.
Ambros and Gerhard Widmer and Bernhard A. Moser",
title = "{DeepSNP}: an End-to-End Deep Neural Network with
Attention-Based Localization for Breakpoint Detection
in Single-Nucleotide Polymorphism Array Genomic Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "572--596",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 December 2018",
}
@Article{Petersen:2019:DRL,
author = "Brenden K. Petersen and Jiachen Yang and Will S.
Grathwohl and Chase Cockrell and Claudio Santiago and
Gary An and Daniel M. Faissol",
title = "Deep Reinforcement Learning and Simulation as a Path
Toward Precision Medicine",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "597--604",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0168",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0168;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0168",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 January 2019",
}
@Article{Chen:2019:SEN,
author = "Qingyu Chen and Xiuzhen Zhang and Yu Wan and Justin
Zobel and Karin Verspoor",
title = "Search Effectiveness in Nonredundant Sequence
Databases: Assessments and Solutions",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "605--617",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0198",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0198;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0198",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 December 2018",
}
@Article{Bazin:2019:NRC,
author = "Alexandre Bazin and Didier Debroas and Engelbert Mephu
Nguifo",
title = "A De Novo Robust Clustering Approach for
Amplicon-Based Sequence Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "6",
pages = "618--624",
month = jun,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0170",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 26 08:04:05 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0170;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0170",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 December 2018",
}
@Article{Deichmann:2019:SIG,
author = "Guest Editor Ute Deichmann",
title = "{{\em Special Issue\/}}: Genomic Regulation:
Experiments, Computational Modeling, and Philosophy",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "625--628",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.29021.ud",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.29021.ud;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.29021.ud",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2019",
}
@Article{Morange:2019:TMT,
author = "Michel Morange",
title = "A Time to Model and a Time to Experiment",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "629--636",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0133",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0133;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0133",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 June 2019",
}
@Article{Deichmann:2019:GME,
author = "Ute Deichmann",
title = "From {Gregor Mendel} to {Eric Davidson}: Mathematical
Models and Basic Principles in Biology",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "637--652",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0087;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0087",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 May 2019",
}
@Article{Istrail:2019:EDR,
author = "Sorin Istrail",
title = "{Eric Davidson}'s Regulatory Genome for Computer
Science: Causality, Logic, and Proof Principles of the
Genomic {\em cis\/}-Regulatory Code",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "653--684",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2019",
}
@Article{Istrail:2019:HDR,
author = "Sorin Istrail and Isabelle S. Peter",
title = "How Does the Regulatory Genome Work?",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "685--695",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0097;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0097",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 June 2019",
}
@Article{Briscoe:2019:UPF,
author = "James Briscoe",
title = "Understanding Pattern Formation in Embryos:
Experiment, Theory, and Simulation",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "696--702",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0090;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0090",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2019",
}
@Article{Rothenberg:2019:CGR,
author = "Ellen V. Rothenberg",
title = "Causal Gene Regulatory Network Modeling and Genomics:
Second-Generation Challenges",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "703--718",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0098;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0098",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2019",
}
@Article{Ciau-Uitz:2019:GRN,
author = "Aldo Ciau-Uitz and Roger Patient",
title = "Gene Regulatory Networks Governing the Generation and
Regeneration of Blood",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "719--725",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0114",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0114;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0114",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2019",
}
@Article{Travis:2019:CMP,
author = "Anthony S. Travis",
title = "Chemical Modeling: From {Paul Ehrlich}'s Dyes to $
\beta $-Blockers --- A Brief History",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "726--734",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0092",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0092;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0092",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2019",
}
@Article{Erwin:2019:PGT,
author = "Douglas H. Erwin",
title = "Prospects for a General Theory of Evolutionary
Novelty",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "735--744",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0089",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0089;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0089",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2019",
}
@Article{Engel:2019:CGB,
author = "Jonathan Engel and Isana Veksler-Lublinsky and Michal
Ziv-Ukelson",
title = "Constrained Gene Block Discovery and Its Application
to Prokaryotic Genomes",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "7",
pages = "745--766",
month = jul,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:55 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0096;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0096",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2019",
}
@Article{Cai:2019:PIS,
author = "Zhipeng Cai and Pavel Skums and Alexander Zelikovsky",
title = "Preface: {14th International Symposium on
Bioinformatics Research and Applications (ISBRA
2018)}",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "767--768",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.29022.zc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.29022.zc",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2019",
}
@Article{Li:2019:DSF,
author = "Huiyu Li and Sheng-Jun Li and Junliang Shang and
Jin-Xing Liu and Chun-Hou Zheng",
title = "A Dynamic Scale-Free Network Particle Swarm
Optimization for Extracting Features on Multi-Omics
Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "769--781",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0185;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0185",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2018",
}
@Article{Gogolewski:2019:TRP,
author = "Krzysztof Gogolewski and Maciej Sykulski and Neo
Christopher Chung and Anna Gambin",
title = "Truncated Robust Principal Component Analysis and
Noise Reduction for Single Cell {RNA} Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "782--793",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0255",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0255;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0255",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 May 2019",
}
@Article{Yohay:2019:EEM,
author = "Ben Yohay and Sagi Snir",
title = "Extending the Evolvability Model to the Prokaryotic
World: Simulations and Results on Real Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "794--805",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 November 2018",
}
@Article{Snir:2019:BIG,
author = "Sagi Snir",
title = "Bounds on Identification of Genome Evolution
Pacemakers",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "806--821",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0178",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0178;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0178",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 January 2019",
}
@Article{Moussa:2019:LSI,
author = "Marmar Moussa and Ion I. M{\u{a}}ndoiu",
title = "Locality Sensitive Imputation for Single Cell
{RNA-Seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "822--835",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0236",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0236;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0236",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2019",
}
@Article{Chen:2019:IIB,
author = "Qingfeng Chen and Canshang Deng and Wei Lan and
Zhixian Liu and Ruiqing Zheng and Jin Liu and Jianxin
Wang",
title = "Identifying Interactions Between Kinases and
Substrates Based on Protein--Protein Interaction
Network",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "836--845",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0048",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0048;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0048",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2019",
}
@Article{Kopp:2019:DMM,
author = "Wolfgang Kopp and Martin Vingron",
title = "{DNA} Motif Match Statistics Without {Poisson}
Approximation",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "846--865",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0144",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0144;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0144",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2019",
}
@Article{Acosta:2019:MMI,
author = "Juan Pablo Acosta and Silvia Restrepo and Juan David
Henao and Liliana L{\'o}pez-Kleine",
title = "Multivariate Method for Inferential Identification of
Differentially Expressed Genes in Gene Expression
Experiments",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "866--874",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 May 2019",
}
@Article{Chung:2019:MIC,
author = "Dahye Chung and Kaiyuan Zhang and Jihoon Yang",
title = "Method for Identifying Cancer-Related Genes Using Gene
Similarity-Based Collaborative Filtering",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "875--881",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0115;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0115",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 May 2019",
}
@Article{Hussain:2019:PDT,
author = "Shahid Hussain and Javed Ferzund and Raza Ul-Haq",
title = "Prediction of Drug Target Sensitivity in Cancer Cell
Lines Using {Apache Spark}",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "8",
pages = "882--889",
month = aug,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0102",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:57 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0102;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0102",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 May 2019",
}
@Article{Martin-Vide:2019:P,
author = "Carlos Mart{\'\i}n-Vide and Miguel A.
Vega-Rodr{\'\i}guez",
title = "Preface",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "891--892",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.29023.cmv",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.29023.cmv",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2019",
}
@Article{Jansson:2019:EAR,
author = "Jesper Jansson and Ramesh Rajaby and Wing-Kin Sung",
title = "An Efficient Algorithm for the Rooted Triplet Distance
Between Galled Trees",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "893--907",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0033",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0033;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0033",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2019",
}
@Article{Silva:2019:UMF,
author = "Gabriel H. G. Silva and Edans F. O. Sandes and George
Teodoro and Alba C. M. A. Melo",
title = "Using Multiple {Fickett} Bands to Accelerate
Biological Sequence Comparisons",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "908--922",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0031",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0031;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0031",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2019",
}
@Article{Hayashi:2019:ANB,
author = "Shuto Hayashi and Takuya Moriyama and Rui Yamaguchi
and Shinichi Mizuno and Mitsuhiro Komura and Satoru
Miyano and Hidewaki Nakagawa and Seiya Imoto",
title = "{ALPHLARD-NT}: {Bayesian} Method for Human Leukocyte
Antigen Genotyping and Mutation Calling through
Simultaneous Analysis of Normal and Tumor Whole-Genome
Sequence Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "923--937",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0224",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0224;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0224",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 April 2019",
}
@Article{Wang:2019:ECL,
author = "Xiaodong Wang and Lei Wang and Daxin Zhu",
title = "Efficient Computation of Longest Common Subsequences
with Multiple Substring Inclusive Constraints",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "938--947",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0008;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0008",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2019",
}
@Article{Bonizzoni:2019:MMB,
author = "Paola Bonizzoni and Gianluca Della Vedova and Yuri
Pirola and Marco Previtali and Raffaella Rizzi",
title = "Multithread Multistring {Burrows--Wheeler} Transform
and Longest Common Prefix Array",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "948--961",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0230",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/multithreading.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0230;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0230",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2019",
}
@Article{Yildiz:2019:MDS,
author = "Muslum Yildiz and Abdulkadir Kocak",
title = "Molecular Dynamics Studies of Histo-Blood Group
Antigen Blocking Human Immunoglobulin {A} Antibody and
Escape Mechanism in Noroviruses Upon Mutation",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "962--974",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0163",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0163;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0163",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2018",
}
@Article{Yang:2019:RLN,
author = "Yushuang Yang and Wei Yang and Ling Jin",
title = "The Role of Long Non-coding {RNA} Prostate
Cancer-Associated Transcript 1 in Prostate Cancer",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "975--984",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0240",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0240;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0240",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 May 2019",
}
@Article{Rahman:2019:ATH,
author = "Mohammad S. Rahman and Gholamreza Haffari",
title = "Analyzing Tumor Heterogeneity by Incorporating
Long-Range Mutational Influences and Multiple Sample
Data into Heterogeneity Factorial Hidden {Markov}
Model",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "985--1002",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0242",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0242;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0242",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 May 2019",
}
@Article{Demongeot:2019:BDC,
author = "Jacques Demongeot and Herv{\'e} Seligmann",
title = "Bias for 3$^\prime $-Dominant Codon Directional
Asymmetry in Theoretical Minimal {RNA} Rings",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "1003--1012",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0256",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0256;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0256",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 May 2019",
}
@Article{Ge:2019:PGI,
author = "Fangfang Ge and Yi Wang and Huayang Li and Rui Zhang
and Xiaotong Wang and Qingyun Li and Zhenchang Liang
and Long Yang",
title = "{Plant-GQ}: an Integrative Database of {G}-Quadruplex
in Plant",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "1013--1019",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0010",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0010;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0010",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2019",
}
@Article{Li:2019:SAS,
author = "Zhicheng Li and Shijian Li and Xian Wei and Qing
Zhao",
title = "Scaled Alternating Steepest Descent Algorithm Applied
for Protein Structure Determination from Nuclear
Magnetic Resonance Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "1020--1029",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0013",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0013;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0013",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2019",
}
@Article{Mao:2019:PPA,
author = "Guo Mao and Shu-Lin Wang and Wei Zhang",
title = "Prediction of Potential Associations Between
{MicroRNA} and Disease Based on {Bayesian}
Probabilistic Matrix Factorization Model",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "9",
pages = "1030--1039",
month = sep,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0012",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Oct 8 06:02:58 MDT 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0012;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0012",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 June 2019",
}
@Article{Solodskikh:2019:PER,
author = "Sergey A. Solodskikh and Alexey S. Velikorondy and
Vasily N. Popov",
title = "Predictive Estimates of Risks Associated with Type 2
Diabetes Mellitus on the Basis of Biochemical
Biomarkers and Derived Time-Dependent Parameters",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1041--1049",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0028",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0028;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0028",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2019",
}
@Article{Yang:2019:MBO,
author = "Louis Z. Yang and Ming Yang",
title = "Modeling Biological Oscillations: Integration of Short
Reaction Pauses into a Stationary Model of a Negative
Feedback Loop Generates Sustained Long Oscillations",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1050--1066",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0017",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0017;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0017",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2019",
}
@Article{Ye:2019:OMM,
author = "Yan Ye and Chunde Bao and Wei Fan",
title = "Overexpression of {miR-101} {May} Target {DUSP1} to
Promote the Cartilage Degradation in Rheumatoid
Arthritis",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1067--1079",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0021",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0021;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0021",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 June 2019",
}
@Article{Li:2019:ICG,
author = "Qi Li and Zhengqiang Luo",
title = "Identification of Candidate Genes for Skeletal Muscle
Injury Prevention in Two Different Types",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1080--1089",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0022",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0022;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0022",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 May 2019",
}
@Article{Li:2019:TRN,
author = "Qi Li and Zhengqiang Luo",
title = "Transcriptional Regulatory Network Analysis to Reveal
the Key Genes Involved in Skeletal Muscle Injury",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1090--1099",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0025",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0025;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0025",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 May 2019",
}
@Article{Budhlakoti:2019:CSS,
author = "Neeraj Budhlakoti and Dwijesh Chandra Mishra and Anil
Rai and S. B. Lal and Krishna Kumar Chaturvedi and
Rajeev Ranjan Kumar",
title = "A Comparative Study of Single-Trait and Multi-Trait
Genomic Selection",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1100--1112",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0032;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0032",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2019",
}
@Article{Liang:2019:IMD,
author = "Xiao Liang and William Chad Young and Ling-Hong Hung
and Adrian E. Raftery and Ka Yee Yeung",
title = "Integration of Multiple Data Sources for Gene Network
Inference Using Genetic Perturbation Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1113--1129",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0036",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0036;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0036",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2019",
}
@Article{Sun:2019:BAS,
author = "Chao Sun and Yifan Gu and Guoqing Chen and Yibao Du",
title = "Bioinformatics Analysis of Stromal Molecular
Signatures Associated with Breast and Prostate Cancer",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1130--1139",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0045",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0045;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0045",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2019",
}
@Article{Wang:2019:DMM,
author = "Liang Wang and Yuquan Pei and Shaolei Li and Shanyuan
Zhang and Yue Yang",
title = "Distinct Molecular Mechanisms Analysis of Three Lung
Cancer Subtypes Based on Gene Expression Profiles",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1140--1155",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0046",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0046;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0046",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2019",
}
@Article{Ghrifi:2019:CSA,
author = "Fatima Ghrifi and Loubna Allam and Lakhlili Wiame and
Azeddine Ibrahimi",
title = "Curcumin-Synthetic Analogs Library Screening by
Docking and Quantitative Structure--Activity
Relationship Studies for {AXL} Tyrosine Kinase
Inhibition in Cancers",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1156--1167",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0052;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0052",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2019",
}
@Article{Zhang:2019:IAG,
author = "Yudong Zhang and Wenxiang Wu and Hao Qu",
title = "Integrated Analysis of the Gene Expression Changes
During Colorectal Cancer Progression by Bioinformatic
Methods",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1168--1176",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0056;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0056",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 June 2019",
}
@Article{Urrutia-Baca:2019:IAD,
author = "Victor Hugo Urrutia-Baca and Ricardo Gomez-Flores and
Myriam Ang{\'e}lica {De La Garza-Ramos} and Patricia
Tamez-Guerra and Daniela Guadalupe Lucio-Sauceda and
Mar{\'\i}a Cristina Rodr{\'\i}guez-Padilla",
title = "Immunoinformatics Approach to Design a Novel
Epitope-Based Oral Vaccine Against
\bioname{Helicobacter pylori}",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "10",
pages = "1177--1190",
month = oct,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0062",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:52 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0062;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0062",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 May 2019",
}
@Article{Rosenthal:2019:BET,
author = "Michael Rosenthal and Darshan Bryner and Fred Huffer
and Shane Evans and Anuj Srivastava and Nicola
Neretti",
title = "{Bayesian} Estimation of Three-Dimensional Chromosomal
Structure from Single-Cell {Hi-C} Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1191--1202",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0100;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0100",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 June 2019",
}
@Article{Wu:2019:IIA,
author = "Yue Wu and Farhad Hormozdiari and Jong Wha J. Joo and
Eleazar Eskin",
title = "Improving Imputation Accuracy by Inferring Causal
Variants in Genetic Studies",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1203--1213",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0139",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0139;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0139",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 October 2018",
}
@Article{Cunha:2019:GRM,
author = "Lu{\'\i}s Felipe I. Cunha and F{\'a}bio Protti",
title = "Genome Rearrangements on Multigenomic Models:
Applications of Graph Convexity Problems",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1214--1222",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0091;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0091",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 May 2019",
}
@Article{Oliveira:2019:CSR,
author = "Andre Rodrigues Oliveira and Klairton Lima Brito and
Ulisses Dias and Zanoni Dias",
title = "On the Complexity of Sorting by Reversals and
Transpositions Problems",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1223--1229",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0078;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0078",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 May 2019",
}
@Article{Yan:2019:BND,
author = "Chao-Kun Yan and Wen-Xiu Wang and Ge Zhang and
Jian-Lin Wang and Ashutosh Patel",
title = "{BiRWDDA}: a Novel Drug Repositioning Method Based on
Multisimilarity Fusion",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1230--1242",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0063;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0063",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2019",
}
@Article{Dong:2019:DFC,
author = "Chaoxuan Dong and Xiao-Yan Chen and Chao-Yi Dong",
title = "Discerning Functional Connections in the Pulsed Neural
Networks with the Dynamic {Bayesian} Network Structure
Search Method Based on a Genetic Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1243--1252",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0147",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0147;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0147",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 June 2019",
}
@Article{Suvorova:2019:NMP,
author = "Yulia M. Suvorova and Eugene V. Korotkov",
title = "New Method for Potential Fusions Detection in
Protein-Coding Sequences",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1253--1261",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0122;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0122",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 June 2019",
}
@Article{Liu:2019:CAC,
author = "Bao-Xinzi Liu and Guan-Jiang Huang and Hai-Bo Cheng",
title = "Comprehensive Analysis of Core Genes and Potential
Mechanisms in Rectal Cancer",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1262--1277",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0073",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0073;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0073",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 June 2019",
}
@Article{Li:2019:IKB,
author = "Feng Li and Peiyuan Guo and Keqin Dong and Peng Guo
and Haoyuan Wang and Xianqiang Lv",
title = "Identification of Key Biomarkers and Potential
Molecular Mechanisms in Renal Cell Carcinoma by
Bioinformatics Analysis",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1278--1295",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0145",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0145;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0145",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2019",
}
@Article{Ai:2019:QCB,
author = "Shangjie Ai and Guanfei Lin and Yong Bai and Xiande
Liu and Linghua Piao",
title = "{QSAR} Classification-Based Virtual Screening Followed
by Molecular Docking Identification of Potential
{COX-2} Inhibitors in a Natural Product Library",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1296--1315",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0142",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0142;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0142",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2019",
}
@Article{Zheng:2019:SSA,
author = "Shunxin Zheng and Liuhong Yang and Yisong Dai and
Lifang Jiang and Yi Wei and Hongwei Wen and Yingfang
Xu",
title = "Screening and Survival Analysis of Hub Genes in
Gastric Cancer Based on Bioinformatics",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1316--1325",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0119",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0119;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0119",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2019",
}
@Article{Li:2019:RMQ,
author = "Yufang Li and Aoshen Wu and Gang Liu and Lei Liu",
title = "A Review of Methods to Quantify the Genomic Similarity
of Topological Associating Domains",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "11",
pages = "1326--1338",
month = nov,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0129",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Sat Nov 30 06:32:54 MST 2019",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0129;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0129",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2019",
}
@Article{Kazakiewicz:2019:MNB,
author = "Denis Kazakiewicz and J{\"u}rgen Claesen and Katarzyna
G{\'o}rczak and Dariusz Plewczynski and Tomasz
Burzykowski",
title = "A Multivariate Negative-Binomial Model with Random
Effects for Differential Gene-Expression Analysis of
Correlated {mRNA} Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1339--1348",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0168",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0168;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0168",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 July 2019",
}
@Article{Toubiana:2019:GAO,
author = "David Toubiana and Rami Puzis and Avi Sadka and
Eduardo Blumwald",
title = "A Genetic Algorithm to Optimize Weighted Gene
Co-Expression Network Analysis",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1349--1366",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0221",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0221;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0221",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2019",
}
@Article{Shen:2019:MMD,
author = "Kexin Shen and Shujuan Zhang and Shurong Ma and
Haishan Zhang",
title = "Molecular Markers and Diagnostic Model Specific for
{Barrett}'s Esophagus",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1367--1378",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0064;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0064",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2019",
}
@Article{Qiu:2019:EDE,
author = "Yong Qiu and Ling-bing Meng and Chen-yi Di and Yu-hu
Huo and Bo-chen Yao and Teng-jiao Zhang and Zhen Hua",
title = "Exploration of the Differentially Expressed Long
Noncoding {RNAs} and Genes of Morphine Tolerance via
Bioinformatic Analysis",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1379--1393",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2019",
}
@Article{Wu:2019:IMM,
author = "Jie Wu and Yijian Zhang and Maolan Li",
title = "Identification of Methylation Markers and
Differentially Expressed Genes with Prognostic Value in
Breast Cancer",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1394--1408",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0179;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0179",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2019",
}
@Article{Jia:2019:IFC,
author = "Xi Jia and Qian Zhao and Yuanyuan Zhang and Yiping
Dong and Li Lei and Ramone A. Williamson and Yutiantian
Lei and Xinyue Tan and Dan Zhang and Jinsong Hu",
title = "Identification of a Five-{CpG} Signature with
Diagnostic Value in Thyroid Cancer",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1409--1417",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0165",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0165;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0165",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 July 2019",
}
@Article{Chen:2019:BAD,
author = "Hengxi Chen and Shuting Cheng and Chang Liu and Jing
Fu and Wei Huang",
title = "Bioinformatics Analysis of Differentially Expressed
Genes, Methylated Genes, and {miRNAs} in Unexplained
Recurrent Spontaneous Abortion",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1418--1426",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0158",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0158;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0158",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2019",
}
@Article{Sharma:2019:SBA,
author = "B. Sharan Sharma and Prabodha K. Swain and Ramtej J.
Verma",
title = "A Systematic Bioinformatics Approach to {Motif}-Based
Analysis of Human Locus Control Regions",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1427--1437",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0155",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0155;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0155",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 July 2019",
}
@Article{Liu:2019:KGI,
author = "Xinxin Liu and Xinqiang Li",
title = "Key Genes Involved in Diabetic Nephropathy
Investigated by Microarray Analysis",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1438--1447",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0182",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0182;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0182",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2019",
}
@Article{Wen:2019:ENB,
author = "Mingxiang Wen and Xiang Qu and Yanyan Zhu and Lingfang
Tian and Zhongqin Shen and Xiulin Yang and Xianqing
Shi",
title = "Exploration of Novel Biomarkers in Vasculitis by
Integrated Bioinfomatic Approaches",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1448--1457",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0176",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0176;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0176",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2019",
}
@Article{Tarraga:2019:PIA,
author = "Wilson Alberto T{\'a}rraga and Horacio Alberto Garda
and Juan Domingo Toledo and Marina Cecilia Gonzalez",
title = "Potential Inhibitors of the Activity of the
Cholesterol-Ester Transfer Protein",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1458--1469",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 July 2019",
}
@Article{Mishra:2019:INS,
author = "Avinash Mishra and Megan Cross and Andreas Hofmann and
Mark J. Coster and Abdul Karim and Abdul Sattar",
title = "Identification of a Novel Scaffold for Inhibition of
Dipeptidyl Peptidase-4",
journal = j-J-COMPUT-BIOL,
volume = "26",
number = "12",
pages = "1470--1486",
month = dec,
year = "2019",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:44 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0201;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0201",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2019",
}
@Article{Zhang:2020:IHG,
author = "Rupeng Zhang and Leifeng Lv and Wenrui Ban and
Xiaoqian Dang and Chen Zhang",
title = "Identification of Hub Genes in {Duchenne} Muscular
Dystrophy: Evidence from Bioinformatic Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "1--8",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0167",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0167;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0167",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2019",
}
@Article{Xu:2020:DAM,
author = "Yangchun Xu and Yan Mu and Ling Wang and Xuan Zhang",
title = "Detailed Analysis of Molecular Mechanisms in Primary
and Metastatic Melanoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "9--19",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0197;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0197",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 August 2019",
}
@Article{Ilan:2020:ATR,
author = "Yaron Ilan",
title = "Advanced Tailored Randomness: a Novel Approach for
Improving the Efficacy of Biological Systems",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "20--29",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0231",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0231;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0231",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 August 2019",
}
@Article{Zhao:2020:MLP,
author = "Jing Zhao and Linlin Yin and Ling He",
title = "The {MicroRNA} Landscapes Profiling Reveals Potential
Signatures of Necrotizing Enterocolitis in Infants",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "30--39",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0183",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0183;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0183",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 August 2019",
}
@Article{Yang:2020:IKB,
author = "Bao Yang and Keqin Dong and Peiyuan Guo and Peng Guo
and Guo Jie and Guanhua Zhang and Tianke Li",
title = "Identification of Key Biomarkers and Potential
Molecular Mechanisms in Oral Squamous Cell Carcinoma by
Bioinformatics Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "40--54",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0211",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0211;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0211",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 August 2019",
}
@Article{Zou:2020:IFE,
author = "Yang-fan Zou and Ling-bing Meng and Qing-qing Wang and
Zhao-kai He and Chen-hao Hu and Meng-jie Shan and
Deng-yuan Wang and Xin Yu",
title = "Identification and Functional Enrichment Analysis of
Potential Diagnostic and Therapeutic Targets in
Adamantinomatous Craniopharyngioma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "55--68",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0184",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0184;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0184",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 August 2019",
}
@Article{Chen:2020:IBA,
author = "Mengwei Chen and Chengqi Kong and Zhiyuan Zheng and
Yin Li",
title = "Identification of Biomarkers Associated with Septic
Cardiomyopathy Based on Bioinformatics Analyses",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "69--80",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0181;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0181",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 August 2019",
}
@Article{Hu:2020:PMI,
author = "Guozhang Hu and Rui Wang and Bo Wei and Le Wang and Qi
Yang and Daliang Kong and Chao Du",
title = "Prognostic Markers Identification in Glioma by Gene
Expression Profile Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "81--90",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0217",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0217;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0217",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2019",
}
@Article{Mohanty:2020:IMT,
author = "Partha Sarathi Mohanty and Sandeep Sharma and Farah
Naaz and Dilip Kumar and Archana Raikwar and Shripad A.
Patil",
title = "Inhibition of \bioname{Mycobacterium tuberculosis}
{tRNA}-Ligases Using {siRNA}-Based Gene Silencing
Method: a Computational Approach",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "91--99",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0156;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0156",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 August 2019",
}
@Article{Liu:2020:IBA,
author = "Shanshan Liu and Wenjuan Tian and Burong Li",
title = "Integrative Bioinformatics Analysis Identifies {NEK2}
as a Potential Biomarker in Head and Neck Squamous Cell
Carcinoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "100--108",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0208",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0208;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0208",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2019",
}
@Article{Shi:2020:CDM,
author = "Ke Shi and Meng-na Ge and Xiao-qiao Chen",
title = "Coordinated {DNA} Methylation and Gene Expression Data
for Identification of the Critical Genes Associated
with Childhood Atopic Asthma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "109--120",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0194",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0194;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0194",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2019",
}
@Article{Zhang:2020:IDE,
author = "Zhenan Zhang and Yuqin Liu and Wei Wang and Yue Xing
and Nanyang Jiang and Hongrui Zhang and Hanwen Zhang
and Lei He and Wei Yue and Lianju Jiang and Kaili
Wang",
title = "Identification of Differentially Expressed Genes
Associated with Lymph Node Tuberculosis by the
Bioinformatic Analysis Based on a Microarray",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "1",
pages = "121--130",
month = jan,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0161",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:46 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0161;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0161",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2019",
}
@Article{Cai:2020:PSI,
author = "Zhipeng Cai and Pavel Skums and Alexander Zelikovsky",
title = "Preface Special Issue: {15th International Symposium
on Bioinformatics Research and Applications (ISBRA
2019)}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "131--132",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.29024.zc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.29024.zc",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 February 2020",
}
@Article{Bruner:2020:RAD,
author = "Ariel Bruner and Roded Sharan",
title = "A Robustness Analysis of Dynamic {Boolean} Models of
Cellular Circuits",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "133--143",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0290",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0290;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0290",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 November 2019",
}
@Article{Gouveia:2020:RBM,
author = "Filipe Gouveia and In{\^e}s Lynce and Pedro T.
Monteiro",
title = "Revision of {Boolean} Models of Regulatory Networks
Using Stable State Observations",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "144--155",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0289",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0289;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0289",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2019",
}
@Article{Brito:2020:SGR,
author = "Klairton Lima Brito and G{\'e}raldine Jean and
Guillaume Fertin and Andre Rodrigues Oliveira and
Ulisses Dias and Zanoni Dias",
title = "Sorting by Genome Rearrangements on Both Gene Order
and Intergenic Sizes",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "156--174",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0293",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0293;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0293",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 December 2019",
}
@Article{Chen:2020:CCP,
author = "Zhi-zhong Chen and Shohei Ueta and Jingyu Li and
Lusheng Wang",
title = "Computing a Consensus Phylogeny via Leaf Removal",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "175--188",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0269;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0269",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Delfino:2020:ESS,
author = "Francesco Delfino and Yuri Porozov and Eugene Stepanov
and Gaik Tamazian and Valentina Tozzini",
title = "Evolutionary Switches Structural Transitions via
Coarse-Grained Models",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "189--199",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0338",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0338;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0338",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 November 2019",
}
@Article{Liu:2020:MSB,
author = "Lixin Liu and Haitao Jiang and Peiqiang Liu and Binhai
Zhu and Daming Zhu",
title = "Maximum Stacking Base Pairs: Hardness and
Approximation by Nonlinear Linear
Programming-Rounding",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "200--211",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0288",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0288;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0288",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2020",
}
@Article{Wang:2020:CFD,
author = "Zihao Wang and Jingrong Zhang and Weifang Gao and
Zhiyong Liu and Xiaohua Wan and Fa Zhang",
title = "A Consensus Framework of Distributed Multiple-Tilt
Reconstruction in Electron Tomography",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "212--222",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0287",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0287;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0287",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 December 2019",
}
@Article{Petrucci:2020:ISS,
author = "Enrico Petrucci and Laurent No{\'e} and Cinzia Pizzi
and Matteo Comin",
title = "Iterative Spaced Seed Hashing: Closing the Gap Between
Spaced Seed Hashing and $k$-mer Hashing",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "223--233",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0298",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/hash.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0298;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0298",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2019",
}
@Article{Fiosina:2020:EDL,
author = "Jelena Fiosina and Maksims Fiosins and Stefan Bonn",
title = "Explainable Deep Learning for Augmentation of Small
{RNA} Expression Profiles",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "234--247",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0320",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0320;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0320",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 December 2019",
}
@Article{Desai:2020:CSU,
author = "Heta P. Desai and Anuja P. Parameshwaran and
Rajshekhar Sunderraman and Michael Weeks",
title = "Comparative Study Using Neural Networks for {16S}
Ribosomal Gene Classification",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "248--258",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0436",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0436;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0436",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 February 2020",
}
@Article{Wimberley:2020:PAC,
author = "Charles E. Wimberley and Steffen Heber",
title = "{PeakPass}: Automating {ChIP-Seq} Blacklist Creation",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "259--268",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0295",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0295;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0295",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 December 2019",
}
@Article{Andersen:2020:CGT,
author = "Jakob L. Andersen and Daniel Merkle and Peter S.
Rasmussen",
title = "Combining Graph Transformations and Semigroups for
Isotopic Labeling Design",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "269--287",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0291",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0291;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0291",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 November 2019",
}
@Article{Hernandez-lopez:2020:TDT,
author = "Ana A. Hernandez-lopez and Claudio Alberti and Marco
Mattavelli",
title = "Toward a Dynamic Threshold for Quality Score
Distortion in Reference-Based Alignment",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "2",
pages = "288--300",
month = feb,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0333",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Feb 11 17:17:47 MST 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0333;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0333",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 December 2019",
}
@Article{Istrail:2020:PSI,
author = "Sorin Istrail",
title = "Preface Special Issue: {RECOMB 2018}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "301",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.29026.si",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.29026.si",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2020",
}
@Article{Bonnet:2020:DRS,
author = "{\'E}douard Bonnet and Pawe{\l} Rz{\k{a}}{\.z}ewski
and Florian Sikora",
title = "Designing {RNA} Secondary Structures Is Hard",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "302--316",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0420",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0420;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0420",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2020",
}
@Article{Boroojeny:2020:GTE,
author = "Ali Ebrahimpour Boroojeny and Akash Shrestha and Ali
Sharifi-Zarchi and Suzanne Renick Gallagher and S. Cenk
Sahinalp and Hamidreza Chitsaz",
title = "Graph Traversal Edit Distance and Extensions",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "317--329",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0511",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0511;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0511",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2020",
}
@Article{Chakraborty:2020:CRN,
author = "Shounak Chakraborty and Stefan Canzar and Tobias
Marschall and Marcel H. Schulz",
title = "Chromatyping: Reconstructing Nucleosome Profiles from
{NOMe} Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "330--341",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0457",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0457;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0457",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2020",
}
@Article{Gortler:2020:LFL,
author = "Franziska G{\"o}rtler and Marian Sch{\"o}n and Jakob
Simeth and Stefan Solbrig and Tilo Wettig and Peter J.
Oefner and Rainer Spang and Michael Altenbuchinger",
title = "Loss-Function Learning for Digital Tissue
Deconvolution",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "342--355",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0462",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0462;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0462",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2020",
}
@Article{Hoinka:2020:AOW,
author = "Jan Hoinka and Yijie Wang and Teresa M. Przytycka",
title = "{AptaBlocks} Online: a {Web}-Based Toolkit for the In
Silico Design of Oligonucleotide Sticky Bridges",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "356--360",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0470",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0470;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0470",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2020",
}
@Article{Larson:2020:INN,
author = "Gary Larson and Jeffrey L. Thorne and Scott
Schmidler",
title = "Incorporating Nearest-Neighbor Site Dependence into
Protein Evolution Models",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "361--375",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0500",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0500;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0500",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2020",
}
@Article{Orenstein:2020:RBU,
author = "Yaron Orenstein",
title = "Reverse {de Bruijn}: Utilizing Reverse Peptide
Synthesis to Cover All Amino Acid $k$-mers",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "376--385",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0448",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0448;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0448",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2020",
}
@Article{Schon:2020:DRP,
author = "Marian Sch{\"o}n and Jakob Simeth and Paul Heinrich
and Franziska G{\"o}rtler and Stefan Solbrig and Tilo
Wettig and Peter J. Oefner and Michael Altenbuchinger
and Rainer Spang",
title = "{DTD}: an {R} Package for Digital Tissue
Deconvolution",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "386--389",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0469",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/s-plus.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0469;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0469",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2020",
}
@Article{Soule:2020:NLC,
author = "Antoine Soul{\'e} and Jean-Marc Steyaert and
J{\'e}r{\^o}me Waldisp{\"u}hl",
title = "A Nested $2$-Level Cross-Validation Ensemble Learning
Pipeline Suggests a Negative Pressure Against Crosstalk
{snoRNA-mRNA} Interactions in {{\em Saccharomyces
cerevisiae\/}}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "390--402",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0464",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0464;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0464",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2020",
}
@Article{Sverchkov:2020:CSN,
author = "Yuriy Sverchkov and Yi-hsuan Ho and Audrey Gasch and
Mark Craven",
title = "Context-Specific Nested Effects Models",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "403--417",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0459",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0459;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0459",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2020",
}
@Article{Wu:2020:UFI,
author = "Yue Wu and Eleazar Eskin and Sriram Sankararaman",
title = "A Unifying Framework for Imputing Summary Statistics
in Genome-Wide Association Studies",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "418--428",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0449",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0449;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0449",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 February 2020",
}
@Article{Yamada:2020:CMI,
author = "Naomi Yamada and Prashant Kumar Kuntala and B.
Franklin Pugh and Shaun Mahony",
title = "{ChExMix}: a Method for Identifying and Classifying
{Protein--DNA} Interaction Subtypes",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "429--435",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0466",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0466;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0466",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 February 2020",
}
@Article{Boroojeny:2020:PPA,
author = "Ali Ebrahimpour Boroojeny and Akash Shrestha and Ali
Sharifi-zarchi and Suzanne Renick Gallagher and
S{\"u}leyman Cenk Sahinalp and Hamidreza Chitsaz",
title = "{PyGTED}: {Python} Application for Computing Graph
Traversal Edit Distance",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "3",
pages = "436--439",
month = mar,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0510",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:01 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/python.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0510;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0510",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2020",
}
@Article{Cowen:2020:PSI,
author = "Lenore J. Cowen",
title = "Preface Special Issue: {RECOMB 2019}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "441",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.29027.ljc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.29027.ljc",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 April 2020",
}
@Article{Benner:2020:MMS,
author = "Philipp Benner and Martin Vingron",
title = "{ModHMM}: a Modular Supra-{Bayesian} Genome
Segmentation Method",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "442--457",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0280",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0280;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0280",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 December 2019",
}
@Article{Gong:2020:MDM,
author = "Boying Gong and Elizabeth Purdom",
title = "{MethCP}: Differentially Methylated Region Detection
with Change Point Models",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "458--471",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0326",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0326;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0326",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2020",
}
@Article{Sahlin:2020:NCL,
author = "Kristoffer Sahlin and Paul Medvedev",
title = "{De Novo} Clustering of Long-Read Transcriptome Data
Using a Greedy, Quality Value-Based Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "472--484",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0299",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0299;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0299",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2020",
}
@Article{Almodaresi:2020:ESE,
author = "Fatemeh Almodaresi and Prashant Pandey and Michael
Ferdman and Rob Johnson and Rob Patro",
title = "An Efficient, Scalable, and Exact Representation of
High-Dimensional Color Information Enabled Using {de
Bruijn} Graph Search",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "485--499",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0322",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0322;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0322",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2020",
}
@Article{Kuhnle:2020:ECC,
author = "Alan Kuhnle and Taher Mun and Christina Boucher and
Travis Gagie and Ben Langmead and Giovanni Manzini",
title = "Efficient Construction of a Complete Index for
Pan-Genomics Read Alignment",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "500--513",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0309",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0309;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0309",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2020",
}
@Article{Mun:2020:MRM,
author = "Taher Mun and Alan Kuhnle and Christina Boucher and
Travis Gagie and Ben Langmead and Giovanni Manzini",
title = "Matching Reads to Many Genomes with the $r$-Index",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "514--518",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0316",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0316;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0316",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2020",
}
@Article{Pan:2020:OOM,
author = "Weihua Pan and Tao Jiang and Stefano Lonardi",
title = "{OMGS}: Optical Map-Based Genome Scaffolding",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "519--533",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0310",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0310;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0310",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2019",
}
@Article{Pellegrina:2020:FAF,
author = "Leonardo Pellegrina and Cinzia Pizzi and Fabio
Vandin",
title = "Fast Approximation of Frequent $k$-Mers and
Applications to Metagenomics",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "534--549",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0314",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0314;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0314",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Jou:2020:MAR,
author = "Jonathan D. Jou and Graham T. Holt and Anna U.
Lowegard and Bruce R. Donald",
title = "Minimization-Aware Recursive {$ K* $}: a Novel,
Provable Algorithm that Accelerates Ensemble-Based
Protein Design and Provably Approximates the Energy
Landscape",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "550--564",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0315",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0315;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0315",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 December 2019",
}
@Article{Lei:2020:TCN,
author = "Haoyun Lei and Bochuan Lyu and E. Michael Gertz and
Alejandro A. Sch{\"a}ffer and Xulian Shi and Kui Wu and
Guibo Li and Liqin Xu and Yong Hou and Michael Dean and
Russell Schwartz",
title = "Tumor Copy Number Deconvolution Integrating Bulk and
Single-Cell Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "565--598",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0302",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0302;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0302",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 March 2020",
}
@Article{Mefford:2020:EEA,
author = "Joel Mefford and Danny Park and Zhili Zheng and Arthur
Ko and Mika Ala-Korpela and Markku Laakso and P{\"a}ivi
Pajukanta and Jian Yang and John Witte and Noah
Zaitlen",
title = "Efficient Estimation and Applications of
Cross-Validated Genetic Predictions to Polygenic Risk
Scores and Linear Mixed Models",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "599--612",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0325",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0325;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0325",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 February 2020",
}
@Article{Kim:2020:HMS,
author = "Younhun Kim and Frederic Koehler and Ankur Moitra and
Elchanan Mossel and Govind Ramnarayan",
title = "How Many Subpopulations Is Too Many? {Exponential}
Lower Bounds for Inferring Population Histories",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "613--625",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0318",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0318;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0318",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2019",
}
@Article{Karasikov:2020:SBR,
author = "Mikhail Karasikov and Harun Mustafa and Amir Joudaki
and Sara Javadzadeh-no and Gunnar R{\"a}tsch and
Andr{\'e} Kahles",
title = "Sparse Binary Relation Representations for Genome
Graph Annotation",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "626--639",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0324",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0324;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0324",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Jain:2020:CSG,
author = "Chirag Jain and Haowen Zhang and Yu Gao and Srinivas
Aluru",
title = "On the Complexity of Sequence-to-Graph Alignment",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "640--654",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0066",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0066;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0066",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2020",
}
@Article{Brand:2020:LRM,
author = "Lodewijk Brand and Xue Yang and Kai Liu and Saad
Elbeleidy and Hua Wang and Hao Zhang and Feiping Nie",
title = "Learning Robust Multilabel Sample Specific Distances
for Identifying {HIV-1} Drug Resistance",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "655--672",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0329",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0329;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0329",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 November 2019",
}
@Article{Anonymous:2020:RIP,
author = "Anonymous",
title = "{{\em Retraction of\/}}: {Identification of Prognosis
Biomarkers of Prostatic Cancer in a Cohort of 498
Patients from TCGA, by Chen Z, Hu H. (J Comput Biol Dec
2019: epub ahead of print; DOI:
10.1089/cmb.2019.0224)}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "4",
pages = "673",
month = apr,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0224.retract",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:02 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0224.retract",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 March 2020",
}
@Article{Gusev:2020:ASS,
author = "Yury Gusev and Svyatoslav Mazilov and Irina Volokhina
and Mikhail Chumakov",
title = "Agrobacterial, Single-Stranded {DNA-Binding} Protein
{VirE2} and Its Complexes",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "675--682",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0243;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0243",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2019",
}
@Article{Garcia-Maya:2020:IWB,
author = "Brenda Ivette Garcia-Maya and Nikolaos Limnios",
title = "Identification of Words in Biological Sequences Under
the Semi-{Markov} Hypothesis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "683--697",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0253;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0253",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2019",
}
@Article{Zhang:2020:BNB,
author = "Lixia Zhang and Leonardo O. Rodrigues and Niven R.
Narain and Viatcheslav R. Akmaev",
title = "{{\em bAIcis\/}}: a Novel {Bayesian} Network
Structural Learning Algorithm and Its Comprehensive
Performance Evaluation Against Open-Source Software",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "698--708",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0210",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/gnu.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0210;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0210",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2019",
}
@Article{Li:2020:RMR,
author = "Zhicheng Li and Shijian Li and Xian Wei and Xubiao
Peng and Qing Zhao",
title = "Recovering the Missing Regions in Crystal Structures
from the Nuclear Magnetic Resonance Measurement Data
Using Matrix Completion Method",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "709--717",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0107;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0107",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2019",
}
@Article{Zhao:2020:CND,
author = "Jingwei Zhao and Le Wang and Daliang Kong and Guozhang
Hu and Bo Wei",
title = "Construction of Novel {DNA} Methylation-Based
Prognostic Model to Predict Survival in Glioblastoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "718--728",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0125",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0125;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0125",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2019",
}
@Article{Li:2020:PNA,
author = "Lei Li and Linhua Jiang and Sihua Peng",
title = "Protein Network Analysis of the Fifth Chromosome of
Zebrafish",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "729--737",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0157;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0157",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2019",
}
@Article{Jasrotia:2020:GWA,
author = "Rahul Singh Jasrotia and Sarika Jaiswal and Pramod
Kumar Yadav and Mustafa Raza and Mir Asif Iquebal and
Anil Rai and Dinesh Kumar",
title = "Genome-Wide Analysis of {HSP70} Family Protein in
\bioname{Vigna radiata} and Coexpression Analysis Under
Abiotic and Biotic Stress",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "738--754",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0166",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0166;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0166",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 August 2019",
}
@Article{Dey:2020:GBA,
author = "Lopamudra Dey and Anirban Mukhopadhyay",
title = "A Graph-Based Approach for Finding the Dengue
Infection Pathways in Humans Using Protein--Protein
Interactions",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "755--768",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0171",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0171;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0171",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2019",
}
@Article{Lu:2020:TSE,
author = "Ying Lu and Qixiu Lu and Houlin Liu and Jixiang Yu and
Chunlei Xin and Yingping Liu and Yanfang Liu and Linlin
Fan",
title = "Time-Series Expression Analysis of Epidermal Stem
Cells from High Fat Diet Mice",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "769--778",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0172",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0172;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0172",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2019",
}
@Article{Zhang:2020:SBA,
author = "Guochang Zhang and Juan Li and Hong Sun and Guanzheng
Yang",
title = "Screening for the Biomarkers Associated with
Myocardial Infarction by Bioinformatics Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "779--785",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0180",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0180;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0180",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 September 2019",
}
@Article{Baeissa:2020:III,
author = "Hanadi M. Baeissa and Frances M. G. Pearl",
title = "Identifying the Impact of Inframe Insertions and
Deletions on Protein Function in Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "786--795",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0192",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0192;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0192",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 August 2019",
}
@Article{Hanson:2020:GKY,
author = "Jack Hanson and Kuldip K. Paliwal and Thomas Litfin
and Yuedong Yang and Yaoqi Zhou",
title = "Getting to Know Your Neighbor: Protein Structure
Prediction Comes of Age with Contextual Machine
Learning",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "796--814",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 August 2019",
}
@Article{Xu:2020:NMB,
author = "Yangchun Xu and Ling Wang and Lanxiang Jiang and Xuan
Zhang",
title = "Novel {MicroRNA} Biomarkers, {{\em miR-142-5p}}, {{\em
miR-550a}}, {{\em miR-1826}}, and {{\em miR-1201}},
Were Identified for Primary Melanoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "815--824",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0198",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0198;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0198",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 September 2019",
}
@Article{Wang:2020:ISC,
author = "Xuedong Wang and Xiaoxi Wang and Xiaoqin Li and Yu
Chang",
title = "Identification of Specific Candidate Diagnostic
Biomarkers for Lung Squamous Cell Carcinoma Based on
Methylation",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "825--833",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0213",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0213;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0213",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 September 2019",
}
@Article{Wu:2020:DMM,
author = "Xihai Wu and Yunhui Han and Fangmei Liu and Lihong
Ruan",
title = "Downregulations of {miR-449a} and {miR-145-5p} Act as
Prognostic Biomarkers for Endometrial Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "5",
pages = "834--844",
month = may,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue Jun 2 19:30:04 MDT 2020",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0215;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0215",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 September 2019",
}
@Article{Majumdar:2020:IFS,
author = "Sayanti Guha Majumdar and Anil Rai and Dwijesh C.
Mishra",
title = "Integrated Framework for Selection of Additive and
Nonadditive Genetic Markers for Genomic Selection",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "845--855",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0223",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0223;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0223",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Zhang:2020:AAK,
author = "Tongchuan Zhang and Guodong Hu and Yuedong Yang and
Jihua Wang and Yaoqi Zhou",
title = "All-Atom Knowledge-Based Potential for {RNA} Structure
Discrimination Based on the Distance-Scaled Finite
Ideal-Gas Reference State",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "856--867",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0251;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0251",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Alyami:2020:NUH,
author = "Sultan Alyami and Chun-Hsi Huang",
title = "Nongreedy Unbalanced {Huffman} Tree Compressor for
Single and Multifasta Files",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "868--876",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/datacompression.bib;
http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 September 2019",
}
@Article{Feng:2020:IAD,
author = "Ye Feng and Chunyu Shi and Dayu Wang and Xuefeng Wang
and Zhi Chen",
title = "Integrated Analysis of {DNA} Copy Number Changes and
Gene Expression Identifies Key Genes in Gastric
Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "877--887",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0149;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0149",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2019",
}
@Article{Yu:2020:IBI,
author = "Fan Yu and Zhong-Sen Le and Li-Hua Chen and Hong Qian
and Bo Yu and Wen-Hua Chen",
title = "Identification of Biomolecular Information in
Rotenone-Induced Cellular Model of {Parkinson}'s
Disease by Public Microarray Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "888--903",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 October 2019",
}
@Article{Ruan:2020:IPG,
author = "Sha-Sha Ruan and Yi-Chen Xiao and Pei-Cheng He and Yi
Wang and Tao Ma",
title = "Identification of Potential Gene Signatures Related to
Sleep Deprivation",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "904--913",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0177",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0177;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0177",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 October 2019",
}
@Article{Mo:2020:KRE,
author = "Lujiao Mo and Guanhua Xu and Channi Wu and Kanda Pan
and Ping Pan and Lingfeng Yu and Xiaoyuan Shen",
title = "Key Regulatory Effect of Activated {{\em HIF-1$ \alpha
$ \slash VEGFA\/}} Signaling Pathway in Systemic
Capillary Leak Syndrome Confirmed by Bioinformatics
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "914--922",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0222",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0222;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0222",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2019",
}
@Article{Dong:2020:IMG,
author = "Xihua Dong and Xiaoou Yu and Hua Li and Hui Kang",
title = "Identification of Marker Genes and Pathways in
Patients with Primary Biliary Cholangitis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "923--933",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0230",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0230;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0230",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Chen:2020:LRM,
author = "Chian Chen and Hsiuying Wang",
title = "Logistic Regression Method for Ligand Discovery",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "934--940",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0232",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0232;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0232",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2019",
}
@Article{Jukan:2020:VPC,
author = "Nermin Jukan and David Zagor{\v{s}}ek and Julija
Lazarevi{\v{c}} and Irena Prelo{\v{z}}nik Zupan and
Nata{\v{s}}a Debeljak and Miha Mo{\v{s}}kon",
title = "{ViDis}: a Platform for Constructing and Sharing of
Medical Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "941--947",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0238",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0238;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0238",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 October 2019",
}
@Article{Zhao:2020:HEF,
author = "Teng Zhao and Kun Qian and Yi Zhang",
title = "High Expression of {{\em FGF5\/}} Is an Independent
Prognostic Factor for Poor Overall Survival and
Relapse-Free Survival in Lung Adenocarcinoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "948--957",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0241",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0241;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0241",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 September 2019",
}
@Article{Jiang:2020:ITA,
author = "Fangping Jiang and Hong Fan and Lian Luo and Yun Li",
title = "An Integrative Transcriptome Analysis Reveals
Consistently Dysregulated Long Noncoding {RNAs} and
Their Transcriptional Regulation Relationships in Heart
Failure",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "958--964",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0246",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0246;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0246",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 September 2019",
}
@Article{Bai:2020:OCK,
author = "Lianmei Bai and Yu Ren and Tianqing Cui",
title = "Overexpression of {{\em CDCA5}}, {{\em KIF4A}}, {{\em
TPX2}}, and {{\em FOXM1\/}} Coregulated Cell Cycle and
Promoted Hepatocellular Carcinoma Development",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "965--974",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0254",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0254;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0254",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 October 2019",
}
@Article{Kanhaiya:2020:IDT,
author = "Krishna Kanhaiya and Dwitiya Tyagi-Tiwari",
title = "Identification of Drug Targets in Breast Cancer
Metabolic Network",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "975--986",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0258;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0258",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Liu:2020:AGE,
author = "Ying Liu and Shenghua Xiong and Shiying Liu and Jie
Chen and Hao Yang and Gang Liu and Gengmi Li",
title = "Analysis of Gene Expression in Bladder Cancer:
Possible Involvement of Mitosis and Complement and
Coagulation Cascades Signaling Pathway",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "6",
pages = "987--998",
month = jun,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:48 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0237;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0237",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 September 2019",
}
@Article{AlvesPinto:2020:SIP,
author = "Icaro {Alves Pinto} and Nelson Jos{\'e} {Freitas Da
Silveira}",
title = "In Silico Identification of Potential Inhibitors of
the {Wnt} Signaling Pathway in Human Breast Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "999--1010",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0311",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0311;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0311",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2019",
}
@Article{Mongia:2020:DDM,
author = "Aanchal Mongia and Debarka Sengupta and Angshul
Majumdar",
title = "{deepMc}: Deep Matrix Completion for Imputation of
Single-Cell {RNA-seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1011--1019",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0278",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0278;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0278",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 October 2019",
}
@Article{Subramanian:2020:RTR,
author = "Sai H. Sankara Subramanian and Karpaga Raja Sundari
Balachandran and Vijaya Raghavan Rangamaran and Dharani
Gopal",
title = "{RemeDB}: Tool for Rapid Prediction of Enzymes
Involved in Bioremediation from High-Throughput
Metagenome Data Sets",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1020--1029",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0345",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0345;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0345",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2019",
}
@Article{Gu:2020:SPR,
author = "Yifan Gu and Guoqing Chen and Yibao Du",
title = "Screening of Prognosis-Related Genes in Primary Breast
Carcinoma Using Genomic Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1030--1040",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0131",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0131;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0131",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 November 2019",
}
@Article{Wang:2020:PLS,
author = "Weiqing Wang and Shaohua Wang and Xiao Chu and Hui Liu
and Ming Xiang",
title = "Predicting the Lung Squamous Cell Carcinoma Diagnosis
and Prognosis Markers by Unique {DNA} Methylation and
Gene Expression Profiles",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1041--1054",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0138",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0138;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0138",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 November 2019",
}
@Article{Jia:2020:IAM,
author = "Xiaochen Jia and Yehui Shi and Yuehong Zhu and Wenjing
Meng and Lihong He and Yongsheng Jia and Zhongsheng
Tong",
title = "Integrated Analysis of {mRNA--miRNA--lncRNA} {ceRNA}
Network in Human {HR+\slash Her-2-} Breast Cancer and
Triple Negative Breast Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1055--1066",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0152",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0152;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0152",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2019",
}
@Article{Tian:2020:DPM,
author = "Yingxuan Tian and Min Yu and Li Sun and Linghua Liu
and Jun Wang and Ke Hui and Qiaofeng Nan and Xinyu Nie
and Yajuan Ren and Xiaoping Ren",
title = "Distinct Patterns of {mRNA} and {lncRNA} Expression
Differences Between Lung Squamous Cell Carcinoma and
Adenocarcinoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1067--1078",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0164",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0164;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0164",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 November 2019",
}
@Article{Zhang:2020:SIK,
author = "Meng Zhang and Chen-Yi Di and Peng Guo and Ling-Bing
Meng and Meng-Jie Shan and Yong Qiu and Pei-Yuan Guo
and Ke-Qin Dong and Qi Xie and Qiang Wang",
title = "Screening and Identification of Key Biomarkers in
Pancreatic Cancer: Evidence from Bioinformatic
Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1079--1091",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0189",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0189;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0189",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Zeng:2020:PRR,
author = "Tian Zeng and Can Chen and Pan Yang and Wenwei Zuo and
Xiaoqing Liu and Yanling Zhang",
title = "A Protective Role for {RHOJ} in {NonSmall} Cell Lung
Cancer Based on Integrated Bioinformatics Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1092--1103",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0209",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0209;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0209",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2019",
}
@Article{Wang:2020:SCG,
author = "Ruike Wang and Xia Du and Yaqin Zhi",
title = "Screening of Critical Genes Involved in Metastasis and
Prognosis of High-Grade Serous Ovarian Cancer by Gene
Expression Profile Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1104--1114",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0235",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0235;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0235",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 November 2019",
}
@Article{Niu:2020:WGC,
author = "Xiaoguang Niu and Yongtao Xu and Ni Gao and Aiwu Li",
title = "Weighted Gene Coexpression Network Analysis Reveals
the Critical {lncRNAs} and {mRNAs} in Development of
{Hirschsprung}'s Disease",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1115--1129",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0261;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0261",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 October 2019",
}
@Article{Deng:2020:PNB,
author = "Chao Deng and Timothy Daley and Peter Calabrese and
Jie Ren and Andrew D. Smith",
title = "Predicting the Number of Bases to Attain Sufficient
Coverage in High-Throughput Sequencing Experiments",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1130--1143",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0264",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0264;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0264",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 November 2019",
}
@Article{Saurabh:2020:SIC,
author = "Kumar Saurabh and Maxim Solovchuk and Tony Wen Hann
Sheu",
title = "Solution of Ion Channel Flow Using Immersed
Boundary--Lattice {Boltzmann} Methods",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1144--1156",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0265;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0265",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 November 2019",
}
@Article{Asiaee:2020:EGE,
author = "Amir Asiaee and Zachary B. Abrams and Samantha
Nakayiza and Deepa Sampath and Kevin R. Coombes",
title = "Explaining Gene Expression Using Twenty-One
{MicroRNAs}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1157--1170",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0321",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0321;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0321",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 December 2019",
}
@Article{Pungpapong:2020:IBK,
author = "Vitara Pungpapong and Min Zhang and Dabao Zhang",
title = "Integrating Biological Knowledge Into Case--Control
Analysis Through Iterated Conditional {Modes/Medians}
Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "7",
pages = "1171--1179",
month = jul,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0319",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:50 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0319;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0319",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 November 2019",
}
@Article{Deblasio:2020:MAT,
author = "Dan Deblasio and Kwanho Kim and Carl Kingsford",
title = "More Accurate Transcript Assembly via Parameter
Advising",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1181--1189",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0286",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0286;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0286",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 April 2020",
}
@Article{Trong:2020:SGA,
author = "Trung Ngo Trong and Juha Mehtonen and Gerardo
Gonz{\'a}lez and Roger Kramer and Ville Hautam{\"a}ki
and Merja Hein{\"a}niemi",
title = "Semisupervised Generative Autoencoder for Single-Cell
Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1190--1203",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0337",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0337;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0337",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 December 2019",
}
@Article{Chen:2020:MMI,
author = "Zhenghao Chen and Ilya Soifer and Hugo Hilton and
Leeat Keren and Vladimir Jojic",
title = "Modeling Multiplexed Images with {{\em
Spatial--LDA\/}} Reveals Novel Tissue
Microenvironments",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1204--1218",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0340",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0340;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0340",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 April 2020",
}
@Article{Carter:2020:CPF,
author = "Brandon Carter and Maxwell Bileschi and Jamie Smith
and Theo Sanderson and Drew Bryant and David Belanger
and Lucy J. Colwell",
title = "Critiquing Protein Family Classification Models Using
Sufficient Input Subsets",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1219--1231",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0339",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0339;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0339",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 December 2019",
}
@Article{Gorczak:2020:CFA,
author = "Katarzyna G{\'o}rczak and J{\"u}rgen Claesen and
Tomasz Burzykowski",
title = "A Conceptual Framework for Abundance Estimation of
Genomic Targets in the Presence of Ambiguous Short
Sequencing Reads",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1232--1247",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0272",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0272;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0272",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 December 2019",
}
@Article{Costa:2020:APA,
author = "Evaldo Bezerra Costa and Gabriel Pereira Silva and
Marcello Goulart Teixeira",
title = "An Approach to Parallel Algorithms for Long {DNA}
Sequences Alignment on Manycore Architecture",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1248--1252",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0362",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0362;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0362",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 January 2020",
}
@Article{Pala:2020:EME,
author = "El{\.I}f Pala and Tuba Denk{\c{c}}eken",
title = "Evaluation of {miRNA} Expression Profiles in
Schizophrenia Using Principal-Component Analysis-Based
Unsupervised Feature Extraction Method",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1253--1263",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0412",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0412;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0412",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Cui:2020:MIL,
author = "Danni Cui and Yingying Liu and Gang Liu and Lei Liu",
title = "A Multiple-Instance Learning-Based Convolutional
Neural Network Model to Detect the {{\em IDH1\/}}
Mutation in the Histopathology Images of Glioma
Tissues",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1264--1272",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0410",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0410;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0410",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2020",
}
@Article{Pepe:2020:AAM,
author = "Daniele Pepe and Jin Hwan Do",
title = "Analyzing Apomorphine-Mediated Effects in a Cell Model
for {Parkinson}'s Disease with Partial Least Squares
Structure Equation Modeling",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1273--1282",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0386",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0386;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0386",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Pirro:2020:HPT,
author = "Stefano Pirr{\`o} and Filomena Spada and Emanuela
Gadaleta and Federica Ferrentino and Graeme J. Thorn
and Gianni Cesareni and Claude Chelala",
title = "{HiPPO} and {PANDA}: Two Bioinformatics Tools to
Support Analysis of Mass Cytometry Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1283--1294",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0384",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0384;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0384",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Duan:2020:MBC,
author = "Xin Duan and Kejun Wang and Jia Ke and Ping Lan and
Feng Gao and Xiaojian Wu",
title = "Multiomics-Based Colorectal Cancer Molecular Subtyping
Using Local Scaling Network Fusion",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1295--1302",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0252",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0252;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0252",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 December 2019",
}
@Article{Cong:2020:PRP,
author = "Ruochen Cong and Jushun Yang and Jie Zhou and Jianhua
Shi and Yihua Zhu and Jianfeng Zhu and Jing Xiao and
Ping Wang and Ying He and Bosheng He",
title = "The Potential Role of Protein Tyrosine Phosphatase,
Receptor Type {C} {(CD45)} in the Intestinal
Ischemia--Reperfusion Injury",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1303--1312",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Mahmud:2020:EDT,
author = "A. K. M. Firoj Mahmud and Doo Yang and Per Stenberg
and Ilya Ioshikhes and Soumyadeep Nandi",
title = "Exploring a \bioname{Drosophila} Transcription Factor
Interaction Network to Identify Cis-Regulatory
Modules",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1313--1328",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0160",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0160;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0160",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2019",
}
@Article{Xu:2020:PEP,
author = "Chunling Xu and Huayi Lu and Fuqiang Li and Guanfang
Su",
title = "Protein Expression Profile on Differentiation of Bone
Marrow {Mesenchymal} Stem Cells into Retinal
Ganglion-Like Cells",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "8",
pages = "1329--1336",
month = aug,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0024",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:52 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0024;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0024",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 December 2019",
}
@Article{Ahsen:2020:RPS,
author = "Mehmet Eren Ahsen and Robert Vogel and Gustavo A.
Stolovitzky",
title = "\pkg{R/PY-SUMMA}: an {R/Python} Package for
Unsupervised Ensemble Learning for Binary
Classification Problems in Bioinformatics",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1337--1340",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0348",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/python.bib;
http://www.math.utah.edu/pub/tex/bib/s-plus.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0348;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0348",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2020",
}
@Article{Fan:2020:IPB,
author = "Zongjiang Fan and Wanqiu Zhao and Shengning Fan and
Chunxiao Li and Jing Qiao and Yongqing Xu",
title = "Identification of Potential Biomarkers for
Intervertebral Disc Degeneration Using the Genome-Wide
Expression Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1341--1349",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0103",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0103;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0103",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2020",
}
@Article{Fan:2020:VKE,
author = "Jianye Fan and Shoubin Dong and Bo Wang",
title = "Variant-Kudu: an Efficient Tool kit Leveraging
Distributed Bitmap Index for Analysis of Massive
Genetic Variation Datasets",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1350--1360",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0344",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0344;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0344",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2020",
}
@Article{Karami:2020:NAS,
author = "Amirhossein Karami and Afshin Fayyaz Movaghar and
Sabine Mercier and Louis Ferre",
title = "New Approximate Statistical Significance of Gapped
Alignments Based on the Greedy Extension Model",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1361--1372",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0203",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0203;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0203",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 January 2020",
}
@Article{Wang:2020:MM,
author = "Yue Wang and Andrey Minarsky and Robert Penner and
Christophe Soul{\'e} and Nadya Morozova",
title = "Model of Morphogenesis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1373--1383",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0414",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0414;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0414",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2020",
}
@Article{Aouabed:2020:VMB,
author = "Haithem Aouabed and Rodrigo Santamar{\'\i}A and Mourad
Elloumi",
title = "{VisBicluster}: a Matrix-Based Bicluster Visualization
of Expression Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1384--1396",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0385",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0385;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0385",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2020",
}
@Article{Chen:2020:APP,
author = "Xiaoxia Chen and Hao Li and Lichao Tian and Qinwei Li
and Jinxiang Luo and Yongqiang Zhang",
title = "Analysis of the Physicochemical Properties of
Acaricides Based on {Lipinski}'s Rule of Five",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1397--1406",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0323",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0323;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0323",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 February 2020",
}
@Article{Alqahtani:2020:SMA,
author = "Fahad Alqahtani and Ion I. M{\u{a}}ndoiu",
title = "Statistical Mitogenome Assembly with {RepeaTs}",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1407--1421",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0505",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0505;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0505",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 February 2020",
}
@Article{Yamada:2020:IPA,
author = "Kohei Yamada and Zhi-zhong Chen and Lusheng Wang",
title = "Improved Practical Algorithms for Rooted Subtree Prune
and Regraft {(rSPR)} Distance and Hybridization
Number",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1422--1432",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0432",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0432;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0432",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 February 2020",
}
@Article{Shi:2020:IPM,
author = "Yu Shi and Shan Zhu and Jianxin Yang and Minghai Shao
and Wenxiu Ding and Wanrong Jiang and Xinchen Sun and
Ninghua Yao",
title = "Investigation of Potential Mechanisms Associated with
Non-small Cell Lung Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1433--1442",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0081",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0081;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0081",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 February 2020",
}
@Article{Wang:2020:CPR,
author = "Feiqi Wang and Tatsuya Akutsu and Tomoya Mori",
title = "Comparison of Pseudoknotted {RNA} Secondary Structures
by Topological Centroid Identification and Tree Edit
Distance",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1443--1451",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0512",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0512;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0512",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2020",
}
@Article{Lo:2020:PMT,
author = "Shih-Chiang Lo and Chao-Xuan You and Che-Chi Shu",
title = "A Practicable Method of Tuning the Noise Intensity at
Protein Level",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1452--1460",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2018.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2018.0151;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2018.0151",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 February 2020",
}
@Article{Elliott:2020:KSP,
author = "Lloyd T. Elliott",
title = "Kinship Solutions for Partially Observed
Multiphenotype Data",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1461--1470",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0440",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0440;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0440",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2020",
}
@Article{Urban:2020:MAH,
author = "Paulina Urban and Vahid Rezaei Tabar and Micha{\l}
Denkiewicz and Grzegorz Bokota and Nirmal Das and
Subhadip Basu and Dariusz Plewczynski",
title = "The Mixture of Autoregressive Hidden {Markov} Models
of Morphology for Dentritic Spines During Activation
Process",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1471--1485",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0383",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0383;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0383",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 March 2020",
}
@Article{Zhang:2020:ISA,
author = "Weina Zhang and Yilun Zhang",
title = "Integrated Survival Analysis of {mRNA} and {microRNA}
Signature of Patients with Breast Cancer Based on {Cox}
Model",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "9",
pages = "1486--1494",
month = sep,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0495",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:54 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0495;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0495",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 March 2020",
}
@Article{Penner:2020:BFE,
author = "Robert C. Penner",
title = "Backbone Free Energy Estimator Applied to Viral
Glycoproteins",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "10",
pages = "1495--1508",
month = oct,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0120",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:56 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0120;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0120",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 April 2020",
}
@Article{Qiu:2020:CPE,
author = "Yier Qiu and Guowen Lu and Yingjie Wu",
title = "Coexpression of {PBX1} and {EMP2} as Prognostic
Biomarkers in Estrogen Receptor-Negative Breast Cancer
via Data Mining",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "10",
pages = "1509--1518",
month = oct,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0491",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:56 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0491;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0491",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 March 2020",
}
@Article{Tang:2020:IBR,
author = "Yiyang Tang and Lihuang Zha and Xiaofang Zeng and
Zaixin Yu",
title = "Identification of Biomarkers Related to Systemic
Sclerosis With or Without Pulmonary Hypertension Using
Co-expression Analysis",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "10",
pages = "1519--1531",
month = oct,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0492",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:56 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0492;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0492",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2020",
}
@Article{Zhang:2020:ISM,
author = "Shusen Zhang and Yuanyuan Lu and Zhongxin Liu and
Xiaopeng Li and Zhihua Wang and Zhigang Cai",
title = "Identification Six Metabolic Genes as Potential
Biomarkers for Lung Adenocarcinoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "10",
pages = "1532--1543",
month = oct,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0454",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:56 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0454;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0454",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2020",
}
@Article{Zou:2020:TSC,
author = "Pan Zou and Lijin Duan and Shasha Zhang and Xue Bai
and Zhenghui Liu and Fengmei Jin and Haibo Sun and
Wentao Xu and Rui Chen",
title = "Target Specificity of the {CRISPR-Cas9} System in
\bioname{Arabidopsis thaliana}, \bioname{Oryza sativa},
and \bioname{Glycine max} Genomes",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "10",
pages = "1544--1552",
month = oct,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0453",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:56 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0453;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0453",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2020",
}
@Article{Shu:2020:TMB,
author = "Yongqian Shu and Xiaohong Wu and Jia Shen and Dongdong
Luo and Xiang Li and Hailong Wang and Yuanhua Tom
Tang",
title = "Tumor Mutation Burden Computation in Two Pan-Cancer
Precision Medicine Next-Generation Sequencing Panels",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "10",
pages = "1553--1560",
month = oct,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0055",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:56 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0055;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0055",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 April 2020",
}
@Article{Zoller:2020:NPI,
author = "Roni Zoller and Meirav Zehavi and Michal Ziv-Ukelson",
title = "A New Paradigm for Identifying Reconciliation-Scenario
Altering Mutations Conferring Environmental
Adaptation",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "11",
pages = "1561--1580",
month = nov,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0472",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:57 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0472;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0472",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 April 2020",
}
@Article{Liu:2020:CRF,
author = "Xiyuan Liu and Di Gao and Gang Shen",
title = "Conditional Random Fields with Least Absolute
Shrinkage and Selection Operator to Classifying the
Barley Genes Based on Expression Level Affected by the
Fungal Infection",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "11",
pages = "1581--1594",
month = nov,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0428",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:57 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0428;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0428",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 March 2020",
}
@Article{Chang:2020:BAS,
author = "Xin Chang and Mei-Feng Yang and Wei Fan and Li-Sheng
Wang and Jun Yao and Zhao-Shen Li and De-Feng Li",
title = "Bioinformatic Analysis Suggests That Three Hub Genes
May Be a Vital Prognostic Biomarker in Pancreatic
Ductal Adenocarcinoma",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "11",
pages = "1595--1609",
month = nov,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0367",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:57 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0367;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0367",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 March 2020",
}
@Article{Prajapati:2020:GPP,
author = "Rutvi Prajapati and Isaac Arnold Emerson",
title = "Gene Prioritization in {Parkinson}'s Disease Using
Human Protein--Protein Interaction Network",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "11",
pages = "1610--1621",
month = nov,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0281",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:57 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0281;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0281",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 April 2020",
}
@Article{Penner:2020:CHF,
author = "Robert C. Penner",
title = "Conserved High Free Energy Sites in Human Coronavirus
Spike Glycoprotein Backbones",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "11",
pages = "1622--1630",
month = nov,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0193",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:57 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0193;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0193",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 May 2020",
}
@Article{Wang:2020:MAD,
author = "Rong Wang and Lei Fu and Jinbin Li and Di Zhao and
Yulan Zhao and Ling Yin",
title = "Microarray Analysis for Differentially Expressed Genes
Between Stromal and Epithelial Cells in Development and
Metastasis of Invasive Breast Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "12",
pages = "1631--1643",
month = dec,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:58 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0154;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0154",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 May 2020",
}
@Article{Wang:2020:CRT,
author = "Xiaojie Wang and Yiyi Zhang and Waleed M. Ghareeb and
Shuangming Lin and Xingrong Lu and Ying Huang and
Shenghui Huang and Zongbin Xu and Pan Chi",
title = "A Comprehensive Repertoire of Transfer {RNA}-Derived
Fragments and Their Regulatory Networks in Colorectal
Cancer",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "12",
pages = "1644--1655",
month = dec,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0305",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:58 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0305;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0305",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2020",
}
@Article{Hu:2020:CAI,
author = "Maolin Hu and Jiangling Xie and Zhifeng Liu and Xuan
Wang and Ming Liu and Jianye Wang",
title = "Comprehensive Analysis Identifying {Wnt} Ligands Gene
Family for Biochemical Recurrence in Prostate
Adenocarcinoma and Construction of a Nomogram",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "12",
pages = "1656--1667",
month = dec,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0397",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:58 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0397;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0397",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2020",
}
@Article{Ye:2020:DMH,
author = "Yusong Ye and Zhuoqin Yang and Jinzhi Lei",
title = "{DNA} Methylation Heterogeneity Induced by
Collaborations Between Enhancers",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "12",
pages = "1668--1677",
month = dec,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0413",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:58 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0413;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0413",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 April 2020",
}
@Article{Li:2020:DTI,
author = "Baoshan Li and Yi Jiang and Jingxin Chu and Qian
Zhou",
title = "Drug-Target Interaction Network Analysis of
Gene-Phenotype Connectivity Maintained by Genistein",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "12",
pages = "1678--1687",
month = dec,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0443",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:58 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0443;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0443",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2020",
}
@Article{Sun:2020:NMB,
author = "Nan Sun and Rui Dong and Shaojun Pei and Changchuan
Yin and Stephen S.-T. Yau",
title = "A New Method Based on Coding Sequence Density to
Cluster Bacteria",
journal = j-J-COMPUT-BIOL,
volume = "27",
number = "12",
pages = "1688--1698",
month = dec,
year = "2020",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0509",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:23:58 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0509;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0509",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2020",
}
@Article{Wekesa:2021:PPF,
author = "Jael Sanyanda Wekesa and Yushi Luan and Jun Meng",
title = "Predicting Protein Functions Based on Differential
Co-expression and Neighborhood Analysis",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "1--18",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0120",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0120;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0120",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2020",
}
@Article{Collins:2021:MAE,
author = "Obiora Cornelius Collins and Kevin Jan Duffy",
title = "Mathematical Analyses on the Effects of Control
Measures for a Waterborne Disease Model with
Socioeconomic Conditions",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "19--32",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0352",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0352;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0352",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 May 2020",
}
@Article{Cao:2021:IMD,
author = "Buwen Cao and Shuguang Deng and Hua Qin and Jiawei Luo
and Guanghui Li and Cheng Liang",
title = "Inferring {MicroRNA}-Disease Associations Based on the
Identification of a Functional Module",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "33--42",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0106",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0106;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0106",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 June 2020",
}
@Article{Sharma:2021:ISI,
author = "Vishnu Kumar Sharma and Prasad V. Bharatam",
title = "Identification of Selective Inhibitors of {{\em Ld\/}}
{DHFR} Enzyme Using Pharmacoinformatic Methods",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "43--59",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0332",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0332;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0332",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 March 2020",
}
@Article{Yin:2021:IPH,
author = "Yang Yin and Yang-fan Zou and Yu Xiao and Tian-xi Wang
and Ya-ni Wang and Zhi-cheng Dong and Yu-hu Huo and
Bo-chen Yao and Ling-bing Meng and Shuang-xia Du",
title = "Identification of Potential Hub Genes of
Atherosclerosis Through Bioinformatic Analysis",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "60--78",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0334",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0334;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0334",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 April 2020",
}
@Article{Zhao:2021:IDE,
author = "Enfa Zhao and Hang Xie and Yushun Zhang",
title = "Identification of Differentially Expressed Genes
Associated with Idiopathic Pulmonary Arterial
Hypertension by Integrated Bioinformatics Approaches",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "79--88",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0433",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0433;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0433",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 June 2020",
}
@Article{Tang:2021:SCF,
author = "Wan Tang and Degong Mu and Ling Han and Xianmin Guo
and Bing Han and Dong Song",
title = "Screening of Clinical Factors Related to Prognosis of
Breast Cancer Based on the {Cox} Proportional Risk
Model",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "89--98",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0110",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
note = "See retraction notice \cite{Anonymous:2022:RSC}.",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0110;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0110",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 August 2020",
}
@Article{Chen:2021:EDM,
author = "Yanwei Chen and Keke Wang and Mengyuan Shang and
Shuangshuang Zhao and Zheng Zhang and Haizhen Yang and
Zheming Chen and Rui Du and Qilong Wang and Baoding
Chen",
title = "Exploration of {DNA} Methylation-Driven Genes in
Papillary Thyroid Carcinoma Based on the Cancer Genome
Atlas",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "1",
pages = "99--114",
month = jan,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0471",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:00 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0471;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0471",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 August 2020",
}
@Article{Mandoiu:2021:SII,
author = "Ion Mandoiu and T. M. Murali and Giri Narasimhan and
Sanguthevar Rajasekaran and Pavel Skums and Alexander
Zelikovsky",
title = "Special Issue: {9th International Computational
Advances in Bio and Medical Sciences (ICCABS 2019)}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "115--116",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29034.im",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/pdf/10.1089/cmb.2021.29034.im",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 February 2021",
}
@Article{Mohebbi:2021:HMT,
author = "Mohammad Mohebbi and Liang Ding and Russell L.
Malmberg and Liming Cai",
title = "Human {MicroRNA} Target Prediction via
Multi-Hypotheses Learning",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "117--132",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0227",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0227;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0227",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 November 2020",
}
@Article{Kuang:2021:DLS,
author = "Shuzhen Kuang and Liangjiang Wang",
title = "Deep Learning of Sequence Patterns for {CCCTC}-Binding
Factor-Mediated Chromatin Loop Formation",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "133--145",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0225",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0225;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0225",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 November 2020",
}
@Article{Yin:2021:DAS,
author = "Wutao Yin and Sakib Mostafa and Fang-xiang Wu",
title = "Diagnosis of Autism Spectrum Disorder Based on
Functional Brain Networks with Deep Learning",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "146--165",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0252",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0252;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0252",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 October 2020",
}
@Article{Syed:2021:MLM,
author = "Khajamoinuddin Syed and William Sleeman and Payal Soni
and Michael Hagan and Jatinder Palta and Rishabh Kapoor
and Preetam Ghosh",
title = "Machine-Learning Models for Multicenter Prostate
Cancer Treatment Plans",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "166--184",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0188",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0188;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0188",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 September 2020",
}
@Article{Hayes:2021:CVD,
author = "Matthew Hayes and Derrick Mullins and Angela Nguyen",
title = "Complex Variant Discovery Using Discordant Cluster
Normalization",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "185--194",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0249",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0249;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0249",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2020",
}
@Article{Chen:2021:OFB,
author = "Hsin-Hao Chen and Chung-Chin Lu",
title = "Optimized Fluorescence-Based Detection in Single
Molecule Synthesis Process",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "195--208",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0226",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0226;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0226",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 November 2020",
}
@Article{Thapa:2021:MGD,
author = "Ishwor Thapa and Hesham Ali",
title = "A Multiomics Graph Database System for Biological Data
Integration and Cancer Informatics",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "209--219",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0231",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0231;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0231",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 August 2020",
}
@Article{Cheng:2021:ANP,
author = "Chu-Yu Cheng and Chung-Chin Lu",
title = "The Agility of a Neuron: Phase Shift Between
Sinusoidal Current Input and Firing Rate Curve",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "2",
pages = "220--234",
month = feb,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0224",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:01 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0224;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0224",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 November 2020",
}
@Article{Alexandrino:2021:GRD,
author = "Alexsandro Oliveira Alexandrino and Andre Rodrigues
Oliveira and Ulisses Dias and Zanoni Dias",
title = "Genome Rearrangement Distance with Reversals,
Transpositions, and Indels",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "235--247",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0121;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0121",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 October 2020",
}
@Article{Barrett:2021:MFL,
author = "Christopher Barrett and Andrei C. Bura and Qijun He
and Fenix W. Huang and Thomas J. X. Li and Michael S.
Waterman and Christian M. Reidys",
title = "Multiscale Feedback Loops in {SARS-CoV-2} Viral
Evolution",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "248--256",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0343",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0343;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0343",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 December 2020",
}
@Article{Castellani:2021:ECE,
author = "Gastone Castellani and Leon N. Cooper and Luciana
Renata {De Oliveira} and Brian S. Blais",
title = "Energy Consumption and Entropy Production in a
Stochastic Formulation of {BCM} Learning",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "257--268",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0118",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0118;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0118",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 December 2020",
}
@Article{Wang:2021:FAC,
author = "Jiasong Wang and Changchuan Yin",
title = "A Fast Algorithm for Computing the {Fourier} Spectrum
of a Fractional Period",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "269--282",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0269;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0269",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 December 2020",
}
@Article{Guerra:2021:RSM,
author = "Concettina Guerra and Sarang Joshi and Yinquan Lu and
Francesco Palini and Umberto Ferraro Petrillo and Jarek
Rossignac",
title = "Rank-Similarity Measures for Comparing Gene
Prioritizations: a Case Study in Autism",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "283--295",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0244;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0244",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 October 2020",
}
@Article{Oill:2021:PAR,
author = "Angela M. Taravella Oill and Anagha J. Deshpande and
Heini M. Natri and Melissa A. Wilson",
title = "{PopInf}: an Approach for Reproducibly Visualizing and
Assigning Population Affiliation in Genomic Samples of
Uncertain Origin",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "296--303",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0434",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0434;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0434",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 October 2020",
}
@Article{Wang:2021:GRP,
author = "Xiao Wang and Dan Hao and Haja N. Kadarmideen",
title = "\pkg{GeneDMRs}: an {R} Package for Gene-Based
Differentially Methylated Regions Analysis",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "304--316",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0081",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/s-plus.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0081;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2020.0081",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 November 2020",
}
@Article{Xia:2021:SIK,
author = "Yijun Xia and Juan Xie and Jun Zhao and Yin Lou and
Dongsheng Cao",
title = "Screening and Identification of Key Biomarkers in
Melanoma: Evidence from Bioinformatic Analyses",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "317--329",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0400",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0400;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0400",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 September 2020",
}
@Article{Yang:2021:IAL,
author = "Jie Yang and Qing-chun Xu and Zhen-yu Wang and Xun Lu
and Liu-kui Pan and Jun Wu and Chen Wang",
title = "Integrated Analysis of an {lncRNA}-Associated {ceRNA}
Network Reveals Potential Biomarkers for Hepatocellular
Carcinoma",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "3",
pages = "330--344",
month = mar,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0250",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Mar 31 17:24:03 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0250;
https://www.liebertpub.com/doi/pdf/10.1089/cmb.2019.0250",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 November 2020",
}
@Article{Schwartz:2021:RSIa,
author = "Russell Schwartz",
title = "{RECOMB 2020} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "345",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29028.rs",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 April 2021",
}
@Article{Guo:2021:CSE,
author = "Yuzhi Guo and Jiaxiang Wu and Hehuan Ma and Sheng Wang
and Junzhou Huang",
title = "Comprehensive Study on Enhancing Low-Quality
Position-Specific Scoring Matrix with Deep Learning for
Accurate Protein Structure Property Prediction: Using
Bagging Multiple Sequence Alignment Learning",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "346--361",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0416",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2021",
}
@Article{Guo:2021:ENE,
author = "Yuzhi Guo and Jiaxiang Wu and Hehuan Ma and Sheng Wang
and Junzhou Huang",
title = "{EPTool}: a New Enhancing {PSSM} Tool for Protein
Secondary Structure Prediction",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "362--364",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0417",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 December 2020",
}
@Article{Caylak:2021:PET,
author = "Gizem Caylak and Oznur Tastan and A. Ercument Cicek",
title = "{Potpourri}: an Epistasis Test Prioritization
Algorithm via Diverse {SNP} Selection",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "365--377",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0429",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 December 2020",
}
@Article{Caylak:2021:TDC,
author = "Gizem Caylak and Oznur Tastan and A. Ercument Cicek",
title = "A Tool for Detecting Complementary Single Nucleotide
Polymorphism Pairs in Genome-Wide Association Studies
for Epistasis Testing",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "378--380",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0430",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2020",
}
@Article{Rahman:2021:RMS,
author = "Amatur Rahman and Paul Medevedev",
title = "Representation of $k$-Mer Sets Using
Spectrum-Preserving String Sets",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "381--394",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0431",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 December 2020",
}
@Article{Zheng:2021:LDS,
author = "Hongyu Zheng and Carl Kingsford and Guillaume
Mar{\c{c}}ais",
title = "Lower Density Selection Schemes via Small Universal
Hitting Sets with Short Remaining Path Length",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "395--409",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0432",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2020",
}
@Article{Bohnenkamper:2021:CRD,
author = "Leonard Bohnenk{\"a}mper and Mar{\'\i}lia D. V. Braga
and Daniel Doerr and Jens Stoye",
title = "Computing the Rearrangement Distance of Natural
Genomes",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "4",
pages = "410--431",
month = apr,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0434",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:33 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 December 2020",
}
@Article{Schwartz:2021:RSIb,
author = "Russell Schwartz",
title = "{RECOMB 2020} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "433--434",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29035.Sch",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2021",
}
@Article{Paige:2021:RGP,
author = "Brooks Paige and James Bell and Aur{\'e}lien Bellet
and Adri{\`a} Gasc{\'o}n and Daphne Ezer",
title = "Reconstructing Genotypes in Private Genomic Databases
from Genetic Risk Scores",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "435--451",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0445",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2021",
}
@Article{Legried:2021:PTS,
author = "Brandon Legried and Erin K. Molloy and Tandy Warnow
and S{\'e}bastien Roch",
title = "Polynomial-Time Statistical Estimation of Species
Trees Under Gene Duplication and Loss",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "452--468",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0424",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 December 2020",
}
@Article{Reyna:2021:NNS,
author = "Matthew A. Reyna and Uthsav Chitra and Rebecca Elyanow
and Benjamin J. Raphael",
title = "{NetMix}: a Network-Structured Mixture Model for
Reduced-Bias Estimation of Altered Subnetworks",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "469--484",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0435",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2021",
}
@Article{Dizaji:2021:DLS,
author = "Kamran Ghasedi Dizaji and Wei Chen and Heng Huang",
title = "Deep Large-Scale Multitask Learning Network for Gene
Expression Inference",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "485--500",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0438",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 May 2021",
}
@Article{Ge:2021:SAA,
author = "Songwei Ge and Haohan Wang and Amir Alavi and Eric
Xing and Ziv Bar-joseph",
title = "Supervised Adversarial Alignment of Single-Cell
{RNA-seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "501--513",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0439",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 January 2021",
}
@Article{Sefer:2021:MLS,
author = "Emre Sefer and Carl Kingsford",
title = "Metric Labeling and Semimetric Embedding for Protein
Annotation Prediction",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "5",
pages = "514--525",
month = may,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0425",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Wed Jun 9 08:40:35 MDT 2021",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
acknowledgement = ack-nhfb,
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 December 2020",
}
@Article{Galas:2021:TIT,
author = "David J. Galas and James Kunert-graf and Lisa Uechi
and Nikita A. Sakhanenko",
title = "Toward an Information Theory of Quantitative
Genetics",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "527--559",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0032;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0032",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 December 2020",
}
@Article{Benner:2021:CLR,
author = "Philipp Benner",
title = "Computing Leapfrog Regularization Paths with
Applications to Large-Scale {$K$}-mer Logistic
Regression",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "560--569",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0284",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0284;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0284",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 March 2021",
}
@Article{Yourdkhani:2021:PIP,
author = "Samaneh Yourdkhani and Elizabeth S. Allman and John A.
Rhodes",
title = "Parameter Identifiability for a Profile Mixture Model
of Protein Evolution",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "570--586",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0315",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0315;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0315",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2021",
}
@Article{Wang:2021:EGS,
author = "Shijia Wang and Shufei Ge and Caroline Colijn and
Priscila Biller and Liangliang Wang and Lloyd T.
Elliott",
title = "Estimating Genetic Similarity Matrices Using
Phylogenies",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "587--600",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0375",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0375;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0375",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 April 2021",
}
@Article{Soto:2021:TTD,
author = "Carlos Soto and Darshan Bryner and Nicola Neretti and
Anuj Srivastava",
title = "Toward a Three-Dimensional Chromosome Shape Alphabet",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "601--618",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0383",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0383;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0383",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 March 2021",
}
@Article{Jung:2021:BEE,
author = "Jinuk Jung and Hyunwhan Joe and Kyungsik Ha and
Jin-muk Lim and Hong-gee Kim",
title = "Biomedical Entity Explorer: a {Web} Server for
Biomedical Entity Exploration",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "619--628",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0364",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0364;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0364",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 June 2021",
}
@Article{Innis:2021:GPC,
author = "Sarah E. Innis and Kelsie Reinaltt and Mete Civelek
and Warren D. Anderson",
title = "{GSEAplot}: a Package for Customizing Gene Set
Enrichment Analysis in {R}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "6",
pages = "629--631",
month = jun,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0426",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:38 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
http://www.math.utah.edu/pub/tex/bib/s-plus.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0426;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0426",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2021",
}
@Article{Anonymous:2021:JCP,
author = "Anonymous",
title = "{{\em JCB\/}} Call for Papers for the Special Issue on
{``40 Years of Computational Biology: In Honor of
Professor Michael Waterman's 80th Birthday''}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "633--635",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29043.cfp",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/fpi/10.1089/cmb.2021.29043.cfp;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.29043.cfp",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 June 2021",
}
@Article{Cai:2021:SIIa,
author = "Zhipeng Cai and Pavel Skums and Yuri Porozov and
Alexander Zelikovsky",
title = "Special Issue: {16th International Symposium on
Bioinformatics Research and Applications (ISBRA
2020)}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "636",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29038.zc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.29038.zc",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 May 2021",
}
@Article{Dai:2021:NME,
author = "Wei Dai and Bingxi Chen and Wei Peng and Xia Li and
Jiancheng Zhong and Jianxin Wang",
title = "A Novel Multi-Ensemble Method for Identifying
Essential Proteins",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "637--649",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0527",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0527;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0527",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 January 2021",
}
@Article{Zhu:2021:PVR,
author = "Lingzhi Zhu and Cheng Yan and Guihua Duan",
title = "Prediction of Virus--Receptor Interactions Based on
Improving Similarities",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "650--659",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0544",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0544;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0544",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 January 2021",
}
@Article{Wu:2021:NPD,
author = "Gaoyan Wu and Mengyun Yang and Yaohang Li and Jianxin
Wang",
title = "{De Novo} Prediction of Drug--Target Interactions
Using {Laplacian} Regularized {Schatten} $p$-Norm
Minimization",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "660--673",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0538",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0538;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0538",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 January 2021",
}
@Article{Liu:2021:ERA,
author = "Chun-cheng Liu and Tao-chuan Shih and Tun-wen Pai and
Chin-hwa Hu and Wen-shyong Tzou",
title = "Enhanced Over-Representation Analysis for the
Differential Regulation of {\em {Birc5a\/}} and {\em
{HIF2\/}} $ \alpha $-Knockdown Approaches",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "674--686",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0556",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0556;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0556",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 January 2021",
}
@Article{Wang:2021:EPP,
author = "Nian Wang and Min Zeng and Yiming Li and Fang-xiang Wu
and Min Li",
title = "Essential Protein Prediction Based on {node2vec} and
{XGBoost}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "687--700",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0543",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0543;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0543",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2021",
}
@Article{Nojgaard:2021:CGS,
author = "Nikolai N{\o}jgaard and Walter Fontana and Marc
Hellmuth and Daniel Merkle",
title = "{Cayley} Graphs of Semigroups Applied to Atom Tracking
in Chemistry",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "701--715",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0548",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0548;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0548",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2021",
}
@Article{Cheloshkina:2021:RCB,
author = "Kseniia Cheloshkina and Islam Bzhikhatlov and Maria
Poptsova",
title = "Randomness in Cancer Breakpoint Prediction",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "716--731",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0551",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0551;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0551",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2021",
}
@Article{Chen:2021:CIS,
author = "Zhineng Chen and Sai Wang and Caiyan Jia and Kai Hu
and Xiongjun Ye and Xuanya Li and Xieping Gao",
title = "{CRDet}: Improving Signet Ring Cell Detection by
Reinforcing the Classification Branch",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "732--743",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0555",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0555;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0555",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 June 2021",
}
@Article{Anonymous:2021:RSP,
author = "Anonymous",
title = "{{\em Retraction of:\/}} {A Study of Potential
SARS-CoV-2 Antiviral Drugs and Preliminary Research of
Their Molecular Mechanism, Based on Anti-SARS-CoV Drug
Screening and Molecular Dynamics Simulation (doi:
10.1089/cmb.2020.0112)}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "7",
pages = "744",
month = jul,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0112.retract",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:39 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0112.retract",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 June 2021",
}
@Article{Cai:2021:SIIb,
author = "Zhipeng Cai and Pavel Skums and Yuri Porozov and
Alexander Zelikovsky",
title = "Special Issue: {16th International Symposium on
Bioinformatics Research and Applications (ISBRA
2020)}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "745--746",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29041.zc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.29041.zc",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2021",
}
@Article{Myasnikova:2021:QAD,
author = "Ekaterina M. Myasnikova and Marat A. Sabirov and
Alexander V. Spirov",
title = "Quantitative Analysis of the Dynamics of Maternal
Gradients in the Early \bioname{Drosophila} Embryo",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "747--757",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0571",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0571;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0571",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2021",
}
@Article{Paszek:2021:TDL,
author = "Jaros{\l}aw Paszek and Alexey Markin and Pawe{\l}
G{\'o}recki and Oliver Eulenstein",
title = "Taming the Duplication-Loss-Coalescence Model with
Integer Linear Programming",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "758--773",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0011",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0011;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0011",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2021",
}
@Article{Gu:2021:SGS,
author = "Wenyan Gu and Aizhong Zhou and Lusheng Wang and Shiwei
Sun and Xuefeng Cui and Daming Zhu",
title = "{SVLR}: Genome Structural Variant Detection Using
Long-Read Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "774--788",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0048",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0048;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0048",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 May 2021",
}
@Article{Yang:2021:FAA,
author = "Wen Yang and Lusheng Wang",
title = "Fast and Accurate Algorithms for Mapping and Aligning
Long Reads",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "789--803",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0603",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0603;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0603",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 June 2021",
}
@Article{Huang:2021:IID,
author = "Qiuyue Huang and Jun Wang and Xiangliang Zhang and
Maozu Guo and Guoxian Yu",
title = "{IsoDA}: Isoform--Disease Association Prediction by
Multiomics Data Fusion",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "804--819",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0626",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0626;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0626",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 April 2021",
}
@Article{Moussa:2021:STI,
author = "Marmar Moussa and Ion I. M{\u{a}}ndoiu",
title = "{SC1}: a Tool for Interactive {Web}-Based Single-Cell
{RNA-Seq} Data Analysis",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "820--841",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0051",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0051;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0051",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 June 2021",
}
@Article{Rondel:2021:PAA,
author = "Filipp Martin Rondel and Roya Hosseini and Bikram
Sahoo and Sergey Knyazev and Igor Mandric and Frank
Stewart and Ion I. M{\u{a}}ndoiu and Bogdan Pasaniuc
and Yuri Porozov and Alexander Zelikovsky",
title = "Pipeline for Analyzing Activity of Metabolic Pathways
in Planktonic Communities Using Metatranscriptomic
Data",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "8",
pages = "842--855",
month = aug,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0053",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:41 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0053;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0053",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 July 2021",
}
@Article{Malikic:2021:SHT,
author = "Salem Maliki{\'c} and Farid Rashidi Mehrabadi and
Erfan Sadeqi Azer and Mohammad Haghir Ebrahimabadi and
Suleyman Cenk Sahinalp",
title = "Studying the History of Tumor Evolution from
Single-Cell Sequencing Data by Exploring the Space of
Binary Matrices",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "9",
pages = "857--879",
month = sep,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0595",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:42 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0595;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0595",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 July 2021",
}
@Article{Li:2021:NRL,
author = "Caesar Z. Li and Eric S. Kawaguchi and Gang Li",
title = "A New $ \ell_0$-Regularized Log-Linear {Poisson}
Graphical Model with Applications to {RNA} Sequencing
Data",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "9",
pages = "880--891",
month = sep,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0558",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:42 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0558;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0558",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2021",
}
@Article{Thanh:2021:CKF,
author = "Vo Hong Thanh and Dani Korpela and Pekka Orponen",
title = "Cotranscriptional Kinetic Folding of {RNA} Secondary
Structures Including Pseudoknots",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "9",
pages = "892--908",
month = sep,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0606",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:42 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0606;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0606",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 April 2021",
}
@Article{Thomas:2021:MNT,
author = "Sunil Thomas",
title = "Mapping the Nonstructural Transmembrane Proteins of
Severe Acute Respiratory Syndrome Coronavirus 2",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "9",
pages = "909--921",
month = sep,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0627",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:42 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0627;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0627",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 June 2021",
}
@Article{Wang:2021:EVP,
author = "Shisheng Wang and Yi Zhong and Jingqiu Cheng and Hao
Yang",
title = "{EnrichVisBox}: a Versatile and Powerful {Web} Toolbox
for Visualizing Complex Functional Enrichment Results
of Omics Data",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "9",
pages = "922--930",
month = sep,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0564",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:42 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0564;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0564",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 July 2021",
}
@Article{Feltes:2021:BTM,
author = "Bruno C{\'e}sar Feltes and Joice {De Faria Poloni} and
M{\'a}rcio Dorn",
title = "Benchmarking and Testing Machine Learning Approaches
with {BARRA:CuRDa}, a {{\em Curated RNA-Seq
Database\/}} for Cancer Research",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "9",
pages = "931--944",
month = sep,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0463",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:42 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0463;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0463",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 July 2021",
}
@Article{Orlovich:2021:SFS,
author = "Yury Orlovich and Kirill Kukharenko and Volker Kaibel
and Pavel Skums",
title = "Scale-Free Spanning Trees and Their Application in
Genomic Epidemiology",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "10",
pages = "945--960",
month = oct,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0500",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:44 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0500;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0500",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 September 2021",
}
@Article{Liu:2021:COP,
author = "Junfeng Liu and Yi Wang and Hongyu Zhao",
title = "Calculating Orthologous Protein-Coding Sequence Set
Probability Using the {Poisson} Process",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "10",
pages = "961--974",
month = oct,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0507",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:44 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0507;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0507",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 September 2021",
}
@Article{Gopal:2021:IRD,
author = "Jeyakodi Gopal and Vigneshwar Suriya Prakash
Sinnarasan and Amouda Venkatesan",
title = "Identification of Repurpose Drugs by Computational
Analysis of Disease--Gene--Drug Associations",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "10",
pages = "975--984",
month = oct,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0356",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:44 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0356;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0356",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 July 2021",
}
@Article{Nation:2021:CAF,
author = "J. B. Nation and Justin Cabot-Miller and Oren Segal
and Robert Lucito and Kira Adaricheva",
title = "Combining Algorithms to Find Signatures That Predict
Risk in Early-Stage Stomach Cancer",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "10",
pages = "985--1006",
month = oct,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0568",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:44 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0568;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0568",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 September 2021",
}
@Article{Zhang:2021:ICD,
author = "Wei Zhang and Shu-lin Wang and Yue Liu",
title = "Identification of Cancer Driver Modules Based on Graph
Clustering from Multiomics Data",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "10",
pages = "1007--1020",
month = oct,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0052",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:44 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0052;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0052",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 September 2021",
}
@Article{Petrovs:2021:IWA,
author = "Rudolfs Petrovs and Egils Stalidzans and Agris
Pentjuss",
title = "{IMFLer}: a {Web} Application for Interactive
Metabolic Flux Analysis and Visualization",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "10",
pages = "1021--1032",
month = oct,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0056",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:44 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0056;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0056",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 August 2021",
}
@Article{Jha:2021:SII,
author = "Sumit Kumar Jha and Ion M{\u{a}}ndoiu and Sanguthevar
Rajasekaran and Pavel Skums and Alexander Zelikovsky",
title = "Special Issue: {10th International Computational
Advances in Bio and Medical Sciences (ICCABS 2020)}",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1033--1034",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29048.skj",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.29048.skj",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 November 2021",
}
@Article{Fu:2021:JCS,
author = "Xuecong Fu and Haoyun Lei and Yifeng Tao and Kerstin
Heselmeyer-haddad and Irianna Torres and Michael Dean
and Thomas Ried and Russell Schwartz",
title = "Joint Clustering of Single-Cell Sequencing and
Fluorescence In Situ Hybridization Data for
Reconstructing Clonal Heterogeneity in Cancers",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1035--1051",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0255",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0255;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0255",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 October 2021",
}
@Article{Andreace:2021:MMR,
author = "Francesco Andreace and Cinzia Pizzi and Matteo Comin",
title = "{MetaProb 2}: Metagenomic Reads Binning Based on
Assembly Using Minimizers and {$K$}-Mers Statistics",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1052--1062",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0270",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0270;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0270",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 August 2021",
}
@Article{Arango-argoty:2021:MFW,
author = "Gustavo A. Arango-argoty and Lenwood S. Heath and Amy
Pruden and Peter J. Vikesland and Liqing Zhang",
title = "{MetaMLP}: a Fast Word Embedding Based Classifier to
Profile Target Gene Databases in Metagenomic Samples",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1063--1074",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0273",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0273;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0273",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 October 2021",
}
@Article{Basher:2021:MPP,
author = "Abdur Rahman M. A. Basher and Ryan J. Mclaughlin and
Steven J. Hallam",
title = "Metabolic Pathway Prediction Using Non-Negative Matrix
Factorization with Improved Precision",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1075--1103",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0258",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0258;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0258",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 September 2021",
}
@Article{Saha:2021:NPN,
author = "Subrata Saha and Ahmed Soliman and Sanguthevar
Rajasekaran",
title = "A Novel Pathway Network Analytics Method Based on
Graph Theory",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1104--1112",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0257",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0257;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0257",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 August 2021",
}
@Article{Melnyk:2021:AZI,
author = "Andrew Melnyk and Fatemeh Mohebbi and Sergey Knyazev
and Bikram Sahoo and Roya Hosseini and Pavel Skums and
Alex Zelikovsky and Murray Patterson",
title = "From Alpha to Zeta: Identifying Variants and Subtypes
of {SARS-CoV-2} Via Clustering",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1113--1129",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0302",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0302;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0302",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2021",
}
@Article{Novikov:2021:SRS,
author = "Daniel Novikov and Sergey Knyazev and Mark Grinshpon
and Pelin Icer and Pavel Skums and Alex Zelikovsky",
title = "Scalable Reconstruction of {SARS-CoV-2} Phylogeny with
Recurrent Mutations",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1130--1141",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0306",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0306;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0306",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2021",
}
@Article{Ali:2021:SFD,
author = "Sarwan Ali and Simone Ciccolella and Lorenzo Lucarella
and Gianluca {Della Vedova} and Murray Patterson",
title = "Simpler and Faster Development of Tumor Phylogeny
Pipelines",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1142--1155",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0271",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0271;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0271",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2021",
}
@Article{Xu:2021:AFP,
author = "Qiaoji Xu and Lingling Jin and Yue Zhang and Xiaomeng
Zhang and Chunfang Zheng and James H. Leebens-mack and
David Sankoff",
title = "Ancestral Flowering Plant Chromosomes and Gene Orders
Based on Generalized Adjacencies and Chromosomal Gene
Co-Occurrences",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "11",
pages = "1156--1179",
month = nov,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0340",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:45 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0340;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0340",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 November 2021",
}
@Article{Llabres:2021:GRF,
author = "Merc{\`e} Llabr{\'e}s and Francesc Rossell{\'o} and
Gabriel Valiente",
title = "The Generalized {Robinson--Foulds} Distance for
Phylogenetic Trees",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "12",
pages = "1181--1195",
month = dec,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0342",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:47 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0342;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0342",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 October 2021",
}
@Article{Nourani:2021:GGO,
author = "Esmaeil Nourani",
title = "{GoVec}: Gene Ontology Representation Learning Using
Weighted Heterogeneous Graph and Meta-Path",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "12",
pages = "1196--1207",
month = dec,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0069",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:47 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0069;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0069",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2021",
}
@Article{Liu:2021:NFS,
author = "Shaoxun Liu and Yi Kou and Lin Chen",
title = "Novel Few-Shot Learning Neural Network for Predicting
Carbohydrate-Active Enzyme Affinity Toward
Fructo-Oligosaccharides",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "12",
pages = "1208--1218",
month = dec,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:47 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0091;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0091",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 December 2021",
}
@Article{Chen:2021:ILI,
author = "Xuejun Chen and Zhenran Jiang",
title = "{ISFMDA}: Learning Interactions of Selected
Features-Based Method for Predicting Potential
{MicroRNA-Disease} Associations",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "12",
pages = "1219--1227",
month = dec,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:47 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0149;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0149",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2021",
}
@Article{Dhankhar:2021:SSA,
author = "Poonam Dhankhar and Vikram Dalal and Viney Kumar",
title = "Screening of Severe Acute Respiratory Syndrome
Coronavirus 2 {RNA-Dependent} {RNA} Polymerase
Inhibitors Using Computational Approach",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "12",
pages = "1228--1247",
month = dec,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2020.0639",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:47 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2020.0639;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2020.0639",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 November 2021",
}
@Article{Sapra:2021:PDM,
author = "Dikscha Sapra and Harpreet Kaur and Anjali Dhall and
Gajendra P. S. Raghava",
title = "{ProCanBio}: a Database of Manually Curated Biomarkers
for Prostate Cancer",
journal = j-J-COMPUT-BIOL,
volume = "28",
number = "12",
pages = "1248--1257",
month = dec,
year = "2021",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0348",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:47 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0348;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0348",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 December 2021",
}
@Article{Anonymous:2022:AR,
author = "Anonymous",
title = "Acknowledgment of Reviewers 2021",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "1",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29053.ack",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29053.ack",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2022",
}
@Article{Peng:2022:RSIa,
author = "Jian Peng",
title = "{RECOMB} 2021 Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "2",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29050.jp",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.29050.jp",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2022",
}
@Article{Demetci:2022:SSCa,
author = "Pinar Demetci and Rebecca Santorella and Bj{\"o}rn
Sandstede and William Stafford Noble and Ritambhara
Singh",
title = "{SCOT}: Single-Cell Multi-Omics Alignment with Optimal
Transport",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "3--18",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0446",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0446;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0446",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2022",
}
@Article{Demetci:2022:SCM,
author = "Pinar Demetci and Rebecca Santorella and Bj{\"o}rn
Sandstede and William Stafford Noble and Ritambhara
Singh",
title = "Single-Cell Multiomics Integration by {SCOT}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "19--22",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0477",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0477;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0477",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2022",
}
@Article{Sun:2022:SSC,
author = "Tianyi Sun and Dongyuan Song and Wei Vivian Li and
Jingyi Jessica Li",
title = "Simulating Single-Cell Gene Expression Count Data with
Preserved Gene Correlations by {scDesign2}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "23--26",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0440",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0440;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0440",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 January 2022",
}
@Article{Shrivastava:2022:GDL,
author = "Harsh Shrivastava and Xiuwei Zhang and Le Song and
Srinivas Aluru",
title = "{GRNUlar}: a Deep Learning Framework for Recovering
Single-Cell Gene Regulatory Networks",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "27--44",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0437",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0437;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0437",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2022",
}
@Article{Nasser:2022:DUN,
author = "Rami Nasser and Yonina C. Eldar and Roded Sharan",
title = "Deep Unfolding for Non-Negative Matrix Factorization
with Application to Mutational Signature Analysis",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "45--55",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0438",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0438;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0438",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2022",
}
@Article{Franzese:2022:SDT,
author = "Nicholas Franzese and Jason Fan and Roded Sharan and
Mark D. M. Leiserson",
title = "{ScalpelSig} Designs Targeted Genomic Panels from Data
to Detect Activity of Mutational Signatures",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "56--73",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0453",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0453;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0453",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2022",
}
@Article{Zaharias:2022:RED,
author = "Paul Zaharias and Martin Grosshauser and Tandy
Warnow",
title = "Re-evaluating Deep Neural Networks for Phylogeny
Estimation: The Issue of Taxon Sampling",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "1",
pages = "74--89",
month = jan,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0383",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:48 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0383;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0383",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 January 2022",
}
@Article{Peng:2022:RSIb,
author = "Jian Peng",
title = "{RECOMB 2021} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "91",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.29051.jp",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.29051.jp",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 February 2022",
}
@Article{Kong:2022:PDL,
author = "Lupeng Kong and Fusong Ju and Wei-mou Zheng and
Jianwei Zhu and Shiwei Sun and Jinbo Xu and Dongbo Bu",
title = "{ProALIGN}: Directly Learning Alignments for Protein
Structure Prediction via Exploiting Context-Specific
Alignment Motifs",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "92--105",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0430",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0430;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0430",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 January 2022",
}
@Article{Du:2022:NMH,
author = "Yuxuan Du and Sarah M. Laperriere and Jed Fuhrman and
Fengzhu Sun",
title = "Normalizing Metagenomic {Hi-C} Data and Detecting
Spurious Contacts Using Zero-Inflated Negative Binomial
Regression",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "106--120",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0439",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0439;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0439",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 January 2022",
}
@Article{Zheng:2022:DRO,
author = "Hongyu Zheng and Cong Ma and Carl Kingsford",
title = "Deriving Ranges of Optimal Estimated Transcript
Expression due to Nonidentifiability",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "121--139",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0444",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0444;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0444",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2022",
}
@Article{Shibuya:2022:SMS,
author = "Yoshihiro Shibuya and Djamal Belazzougui and Gregory
Kucherov",
title = "Set-Min Sketch: a Probabilistic Map for Power-Law
Distributions with Application to $k$-Mer Annotation",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "140--154",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0429",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0429;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0429",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2022",
}
@Article{Blanca:2022:SMS,
author = "Antonio Blanca and Robert S. Harris and David Koslicki
and Paul Medvedev",
title = "The Statistics of $k$-mers from a Sequence Undergoing
a Simple Mutation Process Without Spurious Matches",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "155--168",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0431",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0431;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0431",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 February 2022",
}
@Article{Rossi:2022:MPI,
author = "Massimiliano Rossi and Marco Oliva and Ben Langmead
and Travis Gagie and Christina Boucher",
title = "{MONI}: a Pangenomic Index for Finding Maximal Exact
Matches",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "169--187",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0290",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0290;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0290",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2022",
}
@Article{Rossi:2022:FME,
author = "Massimiliano Rossi and Marco Oliva and Paola Bonizzoni
and Ben Langmead and Travis Gagie and Christina
Boucher",
title = "Finding Maximal Exact Matches Using the $r$-Index",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "188--194",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0445",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0445;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0445",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2022",
}
@Article{Shaw:2022:FEF,
author = "Jim Shaw and Yun William Yu",
title = "\pkg{flopp}: Extremely Fast Long-Read Polyploid
Haplotype Phasing by Uniform Tree Partitioning",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "2",
pages = "195--211",
month = feb,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0436",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:50 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0436;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0436",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 January 2022",
}
@Article{Tozzo:2022:WDW,
author = "Veronica Tozzo and Chlo{\'e}-agathe Azencott and
Samuele Fiorini and Emanuele Fava and Andrea Trucco and
Annalisa Barla",
title = "Where Do We Stand in Regularization for Life Science
Studies?",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "3",
pages = "213--232",
month = mar,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0371",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:52 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2019.0371;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2019.0371",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 April 2021",
}
@Article{Wang:2022:TOL,
author = "Haohan Wang and Bryon Aragam and Eric P. Xing",
title = "Trade-offs of Linear Mixed Models in Genome-Wide
Association Studies",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "3",
pages = "233--242",
month = mar,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0157",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:52 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0157;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0157",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 February 2022",
}
@Article{Alexandrino:2022:LCG,
author = "Alexsandro Oliveira Alexandrino and Andre Rodrigues
Oliveira and Ulisses Dias and Zanoni Dias",
title = "Labeled Cycle Graph for Transposition and Indel
Distance",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "3",
pages = "243--256",
month = mar,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0279",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:52 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0279;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0279",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 November 2021",
}
@Article{Park:2022:UMM,
author = "Heewon Park and Rui Yamaguchi and Seiya Imoto and
Satoru Miyano",
title = "Uncovering Molecular Mechanisms of Drug Resistance via
Network-Constrained Common Structure Identification",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "3",
pages = "257--275",
month = mar,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0314",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:52 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0314;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0314",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 January 2022",
}
@Article{Hassani:2022:OSF,
author = "Hossein Hassani and Zakieh Avazzadeh and J. A.
Tenreiro Machado and Praveen Agarwal and Maryam
Bakhtiar",
title = "Optimal Solution of a Fractional {HIV\slash AIDS}
Epidemic Mathematical Model",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "3",
pages = "276--291",
month = mar,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0253",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:52 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0253;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0253",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 February 2022",
}
@Article{Hammoud:2022:CPT,
author = "Muhsen Hammoud and Charles Morphy D. Santos and
Jo{\~a}o Paulo Gois",
title = "Comparing Phylogenetic Trees Side by Side Through
{iPhyloC}, a New Interactive {Web}-Based Framework",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "3",
pages = "292--303",
month = mar,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0351",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:52 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0351;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0351",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 February 2022",
}
@Article{Emek:2022:SIB,
author = "Yuval Emek and Saket Navlakha",
title = "Special Issue: {Biological Distributed Algorithms
2021}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "305",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29060.ye",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29060.ye",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 April 2022",
}
@Article{Chandrasekhar:2022:MFA,
author = "Arjun Chandrasekhar and Magdalena M. Julkowska",
title = "A Mathematical Framework for Analyzing Wild Tomato
Root Architecture",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "306--316",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0361",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0361;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0361",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 March 2022",
}
@Article{Feldmann:2022:CAR,
author = "Michael Feldmann and Andreas Padalkin and Christian
Scheideler and Shlomi Dolev",
title = "Coordinating Amoebots via Reconfigurable Circuits",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "317--343",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0363",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0363;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0363",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 March 2022",
}
@Article{Zhang:2022:ULB,
author = "Emily Zhang and Jiajia Zhao and Nancy Lynch",
title = "An Upper and Lower Bound for the Convergence Time of
House-Hunting in \bioname{Temnothorax} Ant Colonies",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "344--357",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0364",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0364;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0364",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 February 2022",
}
@Article{Kunev:2022:ASN,
author = "Martin Kunev and Petr Kuznetsov and Denis
Sheynikhovich",
title = "Agreement in Spiking Neural Networks",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "358--369",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0365",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0365;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0365",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 March 2022",
}
@Article{Murray:2022:EDS,
author = "Keith T. Murray and Mien Brabeeba Wang and Nancy
Lynch",
title = "Emergence of Direction-Selective Retinal Cell Types in
Task-Optimized Deep Learning Models",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "370--381",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0368",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0368;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0368",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 March 2022",
}
@Article{Zhao:2022:PPE,
author = "Jiajia Zhao and Nancy Lynch and Stephen C. Pratt",
title = "The Power of Population Effect in
\bioname{Temnothorax} Ant House-Hunting: a
Computational Modeling Approach",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "4",
pages = "382--408",
month = apr,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0369",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Apr 8 09:59:53 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0369;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0369",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 January 2022",
}
@Article{Bigness:2022:ILR,
author = "Jeremy Bigness and Xavier Loinaz and Shalin Patel and
Erica Larschan and Ritambhara Singh",
title = "Integrating Long-Range Regulatory Interactions to
Predict Gene Expression Using Graph Convolutional
Networks",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "5",
pages = "409--424",
month = may,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0316",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Jun 3 08:22:54 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0316;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0316",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2022",
}
@Article{Guo:2022:NSO,
author = "Qianghui Guo and Yinglie Jin and Mengqin Li and Lisa
Hui Sun and Yanyan Xu",
title = "On the Number of Saturated and Optimal Extended
2-Regular Simple Stacks in the {Nussinov--Jacobson}
Energy Model",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "5",
pages = "425--440",
month = may,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0421",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Jun 3 08:22:54 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0421;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0421",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 March 2022",
}
@Article{Mongia:2022:DGD,
author = "Aanchal Mongia and Stuti Jain and Emilie Chouzenoux
and Angshul Majumdar",
title = "{DeepVir}: Graphical Deep Matrix Factorization for In
Silico Antiviral Repositioning --- Application to
{COVID-19}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "5",
pages = "441--452",
month = may,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Jun 3 08:22:54 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0108;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0108",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 April 2022",
}
@Article{Thornton:2022:UDD,
author = "Micah Thornton and Monnie Mcgee",
title = "Use of {DFT} Distance Metrics for Classification of
{SARS-CoV-2} Genomes",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "5",
pages = "453--464",
month = may,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0229",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Jun 3 08:22:54 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0229;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0229",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2022",
}
@Article{Gan:2022:CIS,
author = "Luqin Gan and Giuseppe Vinci and Genevera I. Allen",
title = "Correlation Imputation for Single-Cell {RNA-seq}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "5",
pages = "465--482",
month = may,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0403",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Jun 3 08:22:54 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0403;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0403",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 March 2022",
}
@Article{Espitia:2022:MMH,
author = "Cristian C. Espitia and Miguel A. Botina and Marco A.
Solarte and Ivan Hernandez and Ricardo A. Riascos and
Jo{\~a}o F. Meyer",
title = "Mathematical Model of {HIV\slash AIDS} Considering
Sexual Preferences Under Antiretroviral Therapy, a Case
Study in {San Juan de Pasto, Colombia}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "5",
pages = "483--493",
month = may,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0323",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Fri Jun 3 08:22:54 MDT 2022",
bibsource = "http://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0323;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0323",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 May 2022",
}
@Article{Kumar:2022:SIC,
author = "Sandeep Kumar",
title = "Special Issue: Computational Intelligence",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "495--496",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29063.sk",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29063.sk",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 May 2022",
}
@Article{Alkhathlan:2022:PCB,
author = "Lina Alkhathlan and Abdul Khader Jilani Saudagar",
title = "Predicting and Classifying Breast Cancer Using Machine
Learning",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "497--514",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0236",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0236;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0236",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 December 2021",
}
@Article{Bezdan:2022:FSH,
author = "Timea Bezdan and Miodrag Zivkovic and Nebojsa Bacanin
and Amit Chhabra and Muthusamy Suresh",
title = "Feature Selection by Hybrid Brain Storm Optimization
Algorithm for {COVID-19} Classification",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "515--529",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0256",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0256;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0256",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 April 2022",
}
@Article{Altameem:2022:IAG,
author = "Ayman Altameem and Basetty Mallikarjuna and Abdul
Khader Jilani Saudagar and Meenakshi Sharma and Ramesh
Chandra Poonia",
title = "Improvement of Automatic Glioma Brain Tumor Detection
Using Deep Convolutional Neural Networks",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "530--544",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0280",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0280;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0280",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 March 2022",
}
@Article{Harjule:2022:TEM,
author = "Priyanka Harjule and Manva Mohd. Tokir and Tanuj Mehta
and Shivam Gurjar and Anupam Kumar and Basant Agarwal",
title = "Texture Enhancement of Medical Images for Efficient
Disease Diagnosis with Optimized Fractional Derivative
Masks",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "545--564",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0267",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0267;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0267",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 March 2022",
}
@Article{Aziz:2022:CSB,
author = "Rabia Musheer Aziz",
title = "Cuckoo Search-Based Optimization for Cancer
Classification: a New Hybrid Approach",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "565--584",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0410",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0410;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0410",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2022",
}
@Article{Kim:2022:INC,
author = "Yujung Kim and Jaejik Kim",
title = "Identification of New Clusters from Labeled Data Using
Mixture Models",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "585--596",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0443",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0443;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0443",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 April 2022",
}
@Article{Anonymous:2022:RSC,
author = "Anonymous",
title = "{{\em Retraction of:\/}} {Screening} of Clinical
Factors Related to Prognosis of Breast Cancer Based on
the {Cox} Proportional Risk Model (doi: {\tt
10.1089/cmb.2019.0110})",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "6",
pages = "597",
month = jun,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2019.0110.retract",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:20 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
note = "See \cite{Tang:2021:SCF}.",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2019.0110.retract",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 June 2022",
}
@Article{Istrail:2022:SIP,
author = "Sorin Istrail and Pavel Pevzner and Fengzhu Sun and
Martin Vingron",
title = "Special Issue: {Professor Michael Waterman}'s 80th
Birthday, Part 1",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "599--600",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29065.si",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29065.si",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2022",
}
@Article{Pevzner:2022:MWC,
author = "Pavel Pevzner and Martin Vingron and Christian Reidys
and Fengzhu Sun and Sorin Istrail",
title = "{Michael Waterman}'s Contributions to Computational
Biology and Bioinformatics",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "601--615",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29066.pp",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.29066.pp;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29066.pp",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2022",
}
@Article{Calabrese:2022:QBU,
author = "Peter Calabrese",
title = "Quantitative Biology Undergraduate Major at the
{University of Southern California}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "616--618",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0605",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0605;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0605",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2022",
}
@Article{Xu:2022:TTF,
author = "Siwei Xu and Mario Skarica and Ahyeon Hwang and Yi Dai
and Cheyu Lee and Matthew J. Girgenti and Jing Zhang",
title = "Translator: a {{\em Trans\/}}fer {{\em L\/}}earning
Approach to Facilitate Single-Cell {{\em AT\/}AC-Seq}
Data Analysis fr{\em o\/}m {{\em R\/}}eference
Dataset",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "619--633",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0596",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0596;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0596",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2022",
}
@Article{Zhu:2022:IAM,
author = "Mengqiu Zhu and Yinglei Lai",
title = "Improvements Achieved by Multiple Imputation for
Single-Cell {RNA-Seq} Data in Clustering Analysis and
Differential Expression Analysis",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "634--649",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0597",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0597;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0597",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 May 2022",
}
@Article{Shan:2022:DSM,
author = "Xu Shan and Jinyu Chen and Kangning Dong and Wei Zhou
and Shihua Zhang",
title = "Deciphering the Spatial Modular Patterns of Tissues by
Integrating Spatial and Single-Cell Transcriptomic
Data",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "650--663",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0617",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0617;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0617",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2022",
}
@Article{Liu:2022:SST,
author = "Baqiao Liu and Tandy Warnow",
title = "Scalable Species Tree Inference with External
Constraints",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "664--678",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0543",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0543;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0543",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 February 2022",
}
@Article{Mehta:2022:PJM,
author = "Rohan S. Mehta and Mike Steel and Noah A. Rosenberg",
title = "The Probability of Joint Monophyly of Samples of Gene
Lineages for All Species in an Arbitrary Species Tree",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "679--703",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0647",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0647;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0647",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 May 2022",
}
@Article{Chen:2022:SMM,
author = "Liang Chen and Hui Wan and Qiuyan He and Shun He and
Minghua Deng",
title = "Statistical Methods for Microbiome Compositional Data
Network Inference: a Survey",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "704--723",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0406",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0406;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0406",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2022",
}
@Article{Yooseph:2022:VAB,
author = "Shibu Yooseph and Sahar Tavakoli",
title = "Variational Approximation-Based Model Selection for
Microbial Network Inference",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "724--737",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0595",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0595;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0595",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 May 2022",
}
@Article{Han:2022:LSH,
author = "Wontack Han and Haixu Tang and Yuzhen Ye",
title = "Locality-Sensitive Hashing-Based $k$-Mer Clustering
for Identification of Differential Microbial Markers
Related to Host Phenotype",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "738--751",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0640",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0640;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0640",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2022",
}
@Article{Pardo-diaz:2022:EIG,
author = "Javier Pardo-diaz and Mariano Beguerisse-d{\'\i}az and
Philip S. Poole and Charlotte M. Deane and Gesine
Reinert",
title = "Extracting Information from Gene Coexpression Networks
of \bioname{Rhizobium leguminosarum}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "7",
pages = "752--768",
month = jul,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0600",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:22 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0600;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0600",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 May 2022",
}
@Article{Hu:2022:CAH,
author = "Ran Hu and Xianghong Jasmine Zhou and Wenyuan Li",
title = "Computational Analysis of High-Dimensional {DNA}
Methylation Data for Cancer Prognosis",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "769--781",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0002;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0002",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 June 2022",
}
@Article{Shen:2022:WIM,
author = "Chengze Shen and Minhyuk Park and Tandy Warnow",
title = "{WITCH}: Improved Multiple Sequence Alignment Through
Weighted Consensus Hidden {Markov} Model Alignment",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "782--801",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0585",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0585;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0585",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 May 2022",
}
@Article{Iv:2022:EIC,
author = "Frederick A. Matsen Iv and Peter L. Ralph",
title = "Enabling Inference for Context-Dependent Models of
Mutation by Bounding the Propagation of Dependency",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "802--824",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0644",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0644;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0644",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2022",
xxnote = "Check downcased author string??",
}
@Article{Flomin:2022:DSA,
author = "Dan Flomin and David Pellow and Ron Shamir",
title = "Data Set-Adaptive Minimizer Order Reduces Memory Usage
in $k$-Mer Counting",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "825--838",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0599",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0599;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0599",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 May 2022",
}
@Article{An:2022:NCT,
author = "Shaokun An and Jie Ren and Fengzhu Sun and Lin Wan",
title = "A New Context Tree Inference Algorithm for Variable
Length {Markov} Chain Model with Applications to
Biological Sequence Analyses",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "839--856",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0604",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0604;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0604",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2022",
}
@Article{Lehmann:2022:RIQ,
author = "Kjong-van Lehmann and Andre Kahles and Magdalena Murr
and Gunnar R{\"a}tsch",
title = "{RNA} Instant Quality Check: Alignment-Free
{RNA}-Degradation Detection",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "857--866",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0603",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0603;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0603",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2022",
}
@Article{Mcloughlin:2022:SDE,
author = "Aidan Mcloughlin and Haiyan Huang",
title = "Shared Differential Expression-Based Distance Reflects
Global Cell Type Relationships in Single-Cell {RNA}
Sequencing Data",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "867--879",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0652",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0652;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0652",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 July 2022",
}
@Article{Jiang:2022:TSG,
author = "Wei Jiang and Liang Chen",
title = "Tissue Specificity of Gene Expression Evolves Across
Mammal Species",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "880--891",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0592",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0592;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0592",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 July 2022",
}
@Article{Moon:2022:SSD,
author = "Sehwan Moon and Jeongyoung Hwang and Hyunju Lee",
title = "{SDGCCA}: Supervised Deep Generalized Canonical
Correlation Analysis for Multi-Omics Integration",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "892--907",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0598",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0598;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0598",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2022",
}
@Article{Jiao:2022:GWC,
author = "Rong Jiao and Xiangning Chen and Eric Boerwinkle and
Momiao Xiong",
title = "Genome-Wide Causation Studies of Complex Diseases",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "908--931",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0676",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0676;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0676",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2022",
}
@Article{Zeng:2022:SDT,
author = "Xiangrui Zeng and Ziqian Lin and Mostofa Rafid Uddin
and Bo Zhou and Chao Cheng and Jing Zhang and Zachary
Freyberg and Min Xu",
title = "Structure Detection in Three-Dimensional Cellular
Cryoelectron Tomograms by Reconstructing
Two-Dimensional Annotated Tilt Series",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "8",
pages = "932--941",
month = aug,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0606",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:25 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0606;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0606",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 July 2022",
}
@Article{Kumar:2022:MLP,
author = "Harshit Kumar and Manjit Panigrahi and Anuradha Panwar
and Divya Rajawat and Sonali Sonejita Nayak and K. A.
Saravanan and Kaiho Kaisa and Subhashree Parida and
Bharat Bhushan and Triveni Dutt",
title = "Machine-Learning Prospects for Detecting Selection
Signatures Using Population Genomics Data",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "943--960",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0447",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0447;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0447",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 May 2022",
}
@Article{Shieh:2022:ILP,
author = "Yi-kung Shieh and Dao-yuan Peng and Yu-han Chen and
Tsung-wei Wu and Chin Lung Lu",
title = "An Integer Linear Programming Approach for Scaffolding
Based on Exemplar Breakpoint Distance",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "961--973",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0399",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0399;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0399",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 May 2022",
}
@Article{Leibovich:2022:ODS,
author = "Zehavit Leibovich and Ilan Gronau",
title = "Optimal Design of Synthetic {DNA} Sequences Without
Unwanted Binding Sites",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "974--986",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0417",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0417;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0417",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 May 2022",
}
@Article{Lee:2022:RNM,
author = "Sunho Lee and Seokchol Hong and Jonathan Woo and
Jae-hak Lee and Kyunghee Kim and Lucia Kim and Kunsoo
Park and Jongsun Jung",
title = "{RDscan}: a New Method for Improving Germline and
Somatic Variant Calling Based on Read Depth
Distribution",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "987--1000",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0269",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0269;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0269",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2022",
}
@Article{Ren:2022:KNM,
author = "Ruohan Ren and Changchuan Yin and Stephen S.-T. Yau",
title = "\pkg{kmer2vec}: a Novel Method for Comparing {DNA}
Sequences by \pkg{word2vec} Embedding",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "1001--1021",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0536",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0536;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0536",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 May 2022",
}
@Article{Zhao:2022:SRU,
author = "Minglu Zhao and Ning Tang and Annya L. Dahmani and
Yixin Zhu and Federico Rossano and Tao Gao",
title = "Sharing Rewards Undermines Coordinated Hunting",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "1022--1030",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0549",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0549;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0549",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 June 2022",
}
@Article{Kambhampati:2022:COT,
author = "Sandeep Kambhampati and Sean Murphy and Hideki Uosaki
and Chulan Kwon",
title = "Cross-Organ Transcriptomic Comparison Reveals
Universal Factors During Maturation",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "1031--1044",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0349",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0349;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0349",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 July 2022",
}
@Article{Vijayakumar:2022:HFR,
author = "Saravanan Vijayakumar",
title = "Harnessing Fuzzy Rule Based System for Screening Major
Histocompatibility Complex Class {I} Peptide Epitopes
from the Whole Proteome: an Implementation on the
Proteome of \bioname{Leishmania donovani}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "9",
pages = "1045--1058",
month = sep,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0464",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:27 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0464;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0464",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 April 2022",
}
@Article{Cai:2022:ISB,
author = "Zhipeng Cai and Pavel Skums and Alexander Zelikovsky",
title = "17th International Symposium on Bioinformatics
Research and Applications ({ISBRA 2021})",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1059--1060",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29070.zc",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29070.zc",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 October 2022",
}
@Article{Bai:2022:SSC,
author = "Tian Bai and Zhenting Zhang and Shuyu Guo and Chen
Zhao and Xiao Luo",
title = "Semi-Supervised Cell Detection with Reliable
Pseudo-Labels",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1061--1073",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0108;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0108",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 June 2022",
}
@Article{Zhu:2022:DRS,
author = "Xiaoshu Zhu and Jian Li and Yongchang Lin and Liquan
Zhao and Jianxin Wang and Xiaoqing Peng",
title = "Dimensionality Reduction of Single-Cell {RNA}
Sequencing Data by Combining Entropy and Denoising
{AutoEncoder}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1074--1084",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0118",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0118;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0118",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 July 2022",
}
@Article{Xia:2022:STS,
author = "Yixiao Xia and Minchao Jiang and Yizhang Luo and
Guanwen Feng and Gangyong Jia and Hua Zhang and Pu Wang
and Ruiquan Ge",
title = "{SuccSPred2.0}: a Two-Step Model to Predict
Succinylation Sites Based on Multifeature Fusion and
Selection Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1085--1094",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0109",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0109;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0109",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 June 2022",
}
@Article{Xin:2022:DCN,
author = "Bin Xin and Yaning Yang and Xiaolan Xie and Jiandong
Shang and Zhengyu Liu and Shaoliang Peng",
title = "Detecting and Classifying Nuclei Using Multi-Scale
Fully Convolutional Network",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1095--1103",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0111",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0111;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0111",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2022",
}
@Article{Chen:2022:SSG,
author = "Ming Chen and Wei Jiang and Yi Pan and Jianhua Dai and
Yunwen Lei and Chunyan Ji",
title = "{SGFNNs}: Signed Graph Filtering-based Neural Networks
for Predicting Drug--Drug Interactions",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1104--1116",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0113",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0113;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0113",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2022",
}
@Article{Li:2022:TLB,
author = "Hongjia Li and Ge Chen and Shan Gao and Jintao Li and
Xiaohua Wan and Fa Zhang",
title = "A Transfer Learning-Based Classification Model for
Particle Pruning in Cryo-Electron Microscopy",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1117--1131",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0101",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0101;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0101",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2022",
}
@Article{Khandai:2022:DSC,
author = "Kaustubh Khandai and Cristian Navarro-martinez and
Brendan Smith and Rebecca Buonopane and Soyong Ashley
Byun and Murray Patterson",
title = "Determining Significant Correlation Between Pairs of
Extant Characters in a Small Parsimony Framework",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "10",
pages = "1132--1154",
month = oct,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0141",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:29 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0141;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0141",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 June 2022",
}
@Article{Peer:2022:SIRa,
author = "Itsik Pe'er",
title = "Special Issue: {RECOMB 2022}, Part 1",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1155",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29075.ip",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29075.ip",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2022",
}
@Article{Mahbub:2022:QBG,
author = "Sazan Mahbub and Shashata Sawmya and Arpita Saha and
Rezwana Reaz and M. Sohel Rahman and Md. Shamsuzzoha
Bayzid",
title = "Quartet Based Gene Tree Imputation Using Deep Learning
Improves Phylogenomic Analyses Despite Missing Data",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1156--1172",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0212",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0212;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0212",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 September 2022",
}
@Article{Hill:2022:ITB,
author = "Max Hill and Sebastien Roch",
title = "Inconsistency of Triplet-Based and Quartet-Based
Species Tree Estimation under Intralocus
Recombination",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1173--1197",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0265",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0265;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0265",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 September 2022",
}
@Article{Zhang:2022:MSC,
author = "Ran Zhang and Laetitia Meng-papaxanthos and
Jean-philippe Vert and William Stafford Noble",
title = "Multimodal Single-Cell Translation and Alignment with
Semi-Supervised Learning",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1198--1212",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0264",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0264;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0264",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 October 2022",
}
@Article{Demetci:2022:SSCb,
author = "Pinar Demetci and Rebecca Santorella and Manav
Chakravarthy and Bjorn Sandstede and Ritambhara Singh",
title = "{SCOTv2}: Single-Cell Multiomic Alignment with
Disproportionate Cell-Type Representation",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1213--1228",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0270",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0270;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0270",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 October 2022",
}
@Article{Li:2022:UTU,
author = "Dongshunyi Li and Jun Ding and Ziv Bar-joseph",
title = "{UNIFAN}: a Tool for Unsupervised Single-Cell
Clustering and Annotation",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1229--1232",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0251",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0251;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0251",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 August 2022",
}
@Article{Qian:2022:SPI,
author = "Kun Qian and Shiwei Fu and Hongwei Li and Wei Vivian
Li",
title = "The {scINSIGHT} Package for Integrating Single-Cell
{RNA-Seq} Data from Different Biological Conditions",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1233--1236",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0244",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0244;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0244",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 August 2022",
}
@Article{Jain:2022:ACC,
author = "Chirag Jain and Daniel Gibney and Sharma V.
Thankachan",
title = "Algorithms for Colinear Chaining with Overlaps and Gap
Costs",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1237--1251",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0266",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0266;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0266",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 November 2022",
}
@Article{Dias:2022:EMF,
author = "Fernando H. C. Dias and Lucia Williams and Brendan
Mumey and Alexandru I. Tomescu",
title = "Efficient Minimum Flow Decomposition via Integer
Linear Programming",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "11",
pages = "1252--1267",
month = nov,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0257",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:31 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0257;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0257",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 October 2022",
}
@Article{Peer:2022:SIRb,
author = "Itsik Pe'er",
title = "Special Issue: {RECOMB 2022}, Part 2",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1269",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.29076.ip",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.29076.ip",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 December 2022",
}
@Article{Khan:2022:IRA,
author = "Shahbaz Khan and Milla Kortelainen and Manuel
C{\'a}ceres and Lucia Williams and Alexandru I.
Tomescu",
title = "Improving {RNA} Assembly via Safety and Completeness
in Flow Decompositions",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1270--1287",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0261",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0261;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0261",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2022",
}
@Article{Hoang:2022:DLS,
author = "Minh Hoang and Hongyu Zheng and Carl Kingsford",
title = "Differentiable Learning of Sequence-Specific Minimizer
Schemes with {DeepMinimizer}",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1288--1304",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0275",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0275;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0275",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 September 2022",
}
@Article{Chitra:2022:NPN,
author = "Uthsav Chitra and Tae Yoon Park and Benjamin J.
Raphael",
title = "{NetMix2}: a Principled Network Propagation Algorithm
for Identifying Altered Subnetworks",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1305--1323",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0336",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0336;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0336",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 December 2022",
}
@Article{Ganjdanesh:2022:MGP,
author = "Alireza Ganjdanesh and Jipeng Zhang and Sarah Yan and
Wei Chen and Heng Huang",
title = "Multimodal Genotype and Phenotype Data Integration to
Improve Partial Data-Based Longitudinal Prediction",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1324--1345",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0378",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0378;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0378",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 November 2022",
}
@Article{Guerin:2022:RNO,
author = "Nathan Guerin and Teresa Kaserer and Bruce R. Donald",
title = "{RESISTOR}: a New {OSPREY} Module to Predict
Resistance Mutations",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1346--1352",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0254",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0254;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0254",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 September 2022",
}
@Article{Wang:2022:KMM,
author = "Haohan Wang and Oscar Lopez and Eric P. Xing and Wei
Wu",
title = "Kernel Mixed Model for Transcriptome Association
Study",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1353--1356",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0280",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0280;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0280",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 September 2022",
}
@Article{Mallawaarachchi:2022:ABM,
author = "Vijini Mallawaarachchi and Yu Lin",
title = "Accurate Binning of Metagenomic Contigs Using
Composition, Coverage, and Assembly Graphs",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1357--1376",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0262",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0262;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0262",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 November 2022",
}
@Article{Gibney:2022:HSA,
author = "Daniel Gibney and Sharma V. Thankachan and Srinivas
Aluru",
title = "On the Hardness of Sequence Alignment on {de Bruijn}
Graphs",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1377--1396",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0411",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0411;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0411",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 November 2022",
}
@Article{Saeedi:2022:GTM,
author = "Seyran Saeedi and Myrna Serrano and Dennis G. Yang and
J. Paul Brooks and Gregory A. Buck and Tomasz Arodz",
title = "Group Testing Matrix Design for {PCR} Screening with
Real-Valued Measurements",
journal = j-J-COMPUT-BIOL,
volume = "29",
number = "12",
pages = "1397--1411",
month = dec,
year = "2022",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0413",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:33 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0413;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0413",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 November 2022",
}
@Article{Anonymous:2023:AR,
author = "Anonymous",
title = "Acknowledgment of Reviewers 2022",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "1--2",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29078.ack",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29078.ack",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2022",
}
@Article{Zaman:2023:VVR,
author = "Sumaira Zaman and Samuel Sledzieski and Bonnie Berger
and Yi-Chieh Wu and Mukul S. Bansal",
title = "{virDTL}: Viral Recombination Analysis Through
Phylogenetic Reconciliation and Its Application to
Sarbecoviruses and {SARS-CoV-2}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "3--20",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0507",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0507;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0507",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 September 2022",
}
@Article{Pal:2023:SMG,
author = "Soumitra Pal and Brian Oliver and Teresa M.
Przytycka",
title = "Stochastic Modeling of Gene Expression Evolution
Uncovers Tissue- and Sex-Specific Properties of
Expression Evolution in the \bioname{Drosophila}
Genus",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "21--40",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0121",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0121;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0121",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 August 2022",
}
@Article{Wang:2023:FAS,
author = "Biing-feng Wang",
title = "Fast Algorithms for the Simplified Partial Digest
Problem",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "41--51",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0641",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0641;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0641",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 May 2022",
}
@Article{Akman:2023:BMP,
author = "Ozgur E. Akman and Kevin Doherty and Benjamin J.
Wareham",
title = "{BDEtools}: a {MATLAB} Package for {Boolean} Delay
Equation Modeling",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "52--69",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0658",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
https://www.math.utah.edu/pub/tex/bib/matlab.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0658;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0658",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 September 2022",
}
@Article{Goulet:2023:COU,
author = "Dennis R. Goulet and Yongqi Yan and Palak Agrawal and
Andrew B. Waight and Amanda Nga-sze Mak and Yi Zhu",
title = "Codon Optimization Using a Recurrent Neural Network",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "70--81",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0458",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0458;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0458",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 June 2022",
}
@Article{Yan:2023:MSG,
author = "Chaochao Yan and Jinyu Yang and Hehuan Ma and Sheng
Wang and Junzhou Huang",
title = "Molecule Sequence Generation with Rebalanced
Variational Autoencoder Loss",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "82--94",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0063",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0063;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0063",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2022",
}
@Article{Nambiar:2023:TNN,
author = "Ananthan Nambiar and Simon Liu and Maeve Heflin and
John Malcolm Forsyth and Sergei Maslov and Mark Hopkins
and Anna Ritz",
title = "Transformer Neural Networks for Protein Family and
Interaction Prediction Tasks",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "95--111",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0132",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0132;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0132",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2022",
}
@Article{Shao:2023:CGM,
author = "Jian Shao and Ziqing Liu and Shaoyun Li and Benrui Wu
and Zedong Nie and Yuefei Li and Kaixin Zhou",
title = "Continuous Glucose Monitoring Time Series Data
Analysis: a Time Series Analysis Package for Continuous
Glucose Monitoring Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "1",
pages = "112--116",
month = jan,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0100",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:35 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0100;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0100",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 August 2022",
}
@Article{Alzamel:2023:PMS,
author = "Mai Alzamel and Christopher Hampson and Costas
Iliopoulos and Fatima Vayani",
title = "Preface: {MatBio 2021} Special Section",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "117",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29080.pre",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29080.pre",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 January 2023",
xxnote = "Check downcased author string??",
}
@Article{Miardan:2023:EPD,
author = "Mona Meghdari Miardan and Arash Jamshidpey and David
Sankoff",
title = "Escape from Parsimony of a Double-Cut-and-Join Genome
Evolution Process",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "118--130",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0468",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0468;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0468",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 January 2023",
}
@Article{Alnasir:2023:IEM,
author = "Jamie J. Alnasir and Hugh P. Shanahan",
title = "Intra-Exon {Motif} Correlations as a Proxy Measure for
Mean Per-Tile Sequence Quality Data in {RNA-Seq}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "131--148",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0476",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0476;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0476",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 January 2023",
}
@Article{Golding:2023:CMC,
author = "G. Brian Golding and Holly Koponen and Neerja Mhaskar
and W. F. Smyth",
title = "Computing Maximal Covers for Protein Sequences",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "149--160",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0520",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0520;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0520",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "8 August 2022",
}
@Article{Bayzid:2023:IOS,
author = "Md. Shamsuzzoha Bayzid",
title = "Inferring Optimal Species Trees in the Presence of
Gene Duplication and Loss: Beyond Rooted Gene Trees",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "161--175",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0522",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0522;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0522",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 October 2022",
}
@Article{Yamamoto:2023:PPS,
author = "Akito Yamamoto and Tetsuo Shibuya",
title = "Privacy-Preserving Statistical Analysis of Genomic
Data Using Compressive Mechanism with {Haar} Wavelet
Transform",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "176--188",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0246",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0246;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0246",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 November 2022",
}
@Article{Wang:2023:GWA,
author = "Shijia Wang and Shufei Ge and Benjamin Sobkowiak and
Liangliang Wang and Louis Grandjean and Caroline Colijn
and Lloyd T. Elliott",
title = "Genome-Wide Association with Uncertainty in the
Genetic Similarity Matrix",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "189--203",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0067",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0067;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0067",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 November 2022",
}
@Article{Pande:2023:PTC,
author = "Akshara Pande and Sumeet Patiyal and Anjali Lathwal
and Chakit Arora and Dilraj Kaur and Anjali Dhall and
Gaurav Mishra and Harpreet Kaur and Neelam Sharma and
Shipra Jain and Salman Sadullah Usmani and Piyush
Agrawal and {\textellipsis} See all authors",
title = "Pfeature: a Tool for Computing Wide Range of Protein
Features and Building Prediction Models",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "204--222",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0241",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0241;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0241",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 October 2022",
}
@Article{Park:2023:GRN,
author = "Heewon Park and Seiya Imoto and Satoru Miyano",
title = "Gene Regulatory Network-Classifier: Gene Regulatory
Network-Based Classifier and Its Applications to
Gastric Cancer Drug (5-Fluorouracil) Marker
Identification",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "2",
pages = "223--243",
month = feb,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0181",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:37 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0181;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0181",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 November 2022",
}
@Article{Nayeem:2023:MFP,
author = "Muhammad Ali Nayeem and Naser Anjum Samudro and M.
Saifur Rahman and M. Sohel Rahman",
title = "{MAMMLE}: a Framework for Phylogeny Estimation Based
on Multiobjective Application-aware Multiple Sequence
Alignment and Maximum Likelihood Ensemble",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "245--249",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0533",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0533;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0533",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 January 2023",
}
@Article{Wilson:2023:ECB,
author = "Deangelo Wilson and John D. Rogers",
title = "Evaluating Compression-Based Phylogeny Estimation in
the Presence of Incomplete Lineage Sorting",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "250--260",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0197",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0197;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0197",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2023",
}
@Article{Bogdanowicz:2023:GPM,
author = "Damian Bogdanowicz and Krzysztof Giaro",
title = "Generalization of Phylogenetic Matching Metrics with
Experimental Tests of Practical Advantages",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "261--276",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0090",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0090;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0090",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2022",
}
@Article{Dragomir:2023:PIM,
author = "Dakota Dragomir and Elizabeth S. Allman and John A.
Rhodes",
title = "Parameter Identifiability of a Multitype Pure-Birth
Model of Speciation",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "277--292",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0330",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0330;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0330",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 February 2023",
}
@Article{Ren:2023:PPT,
author = "Jie Ren and Huaimin Yuan and Qimin Zhang",
title = "Positivity Preserving Truncated {Euler--Maruyama}
Scheme for the Stochastic Age-Structured {HIV\slash
AIDS} Model",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "293--322",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0032",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0032;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0032",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 January 2023",
}
@Article{Banman:2023:AMA,
author = "Andrew Banman and Nikita A. Sakhanenko and James
Kunert-graf and David J. Galas",
title = "{{\em ApoE\/}} Modifier Alleles for {Alzheimer}'s
Disease Discovered by Information Theory Dependency
Measures: \pkg{MIST} Software Package",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "323--336",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0185;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0185",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 November 2022",
}
@Article{Zhang:2023:ADW,
author = "Shilong Zhang and Sufang Wang",
title = "{ATAC-DEA}: a {Web}-Based {ATAC-Seq} Data Differential
Peak and Annotation Analysis Application",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "337--345",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0033",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0033;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0033",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 January 2023",
}
@Article{Ashok:2023:ASO,
author = "Malvika Ashok and Abhishek Gupta",
title = "Automatic Segmentation of Organs-at-Risk in Thoracic
Computed Tomography Images Using Ensembled {U-Net
InceptionV3} Model",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "3",
pages = "346--362",
month = mar,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0248",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:39 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0248;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0248",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 January 2023",
}
@Article{Bansal:2023:SII,
author = "Mukul S. Bansal and Ion I. M{\u{a}}ndoiu and Marmar
Moussa and Murray Patterson and Sanguthevar Rajasekaran
and Pavel Skums and Alexander Zelikovsky",
title = "Special Issue: {11th International Computational
Advances in Bio and Medical Sciences (ICCABS 2021)}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "363--365",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29085.msb",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/fpi/10.1089/cmb.2023.29085.msb;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29085.msb",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2023",
}
@Article{Mitchell:2023:EUM,
author = "Audrey Mitchell and Marco Ruiz and Soua Yang and Chen
Wang and Jaime I. Davila",
title = "{Excerno}: Using Mutational Signatures in Sequencing
Data to Filter False Variants Caused by Clinical
Archival",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "366--375",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0394",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0394;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0394",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 November 2022",
}
@Article{Li:2023:AST,
author = "Yi Li and Mandy Chen and Joshy George and Edison T.
Liu and R. Krishna Murthy Karuturi",
title = "Adaptive Sentinel Testing in Workplace for {COVID-19}
Pandemic",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "376--390",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0291",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0291;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0291",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 November 2022",
}
@Article{Tithi:2023:FNR,
author = "Saima Sultana Tithi and Frank O. Aylward and Roderick
V. Jensen and Liqing Zhang",
title = "{FastViromeExplorer-Novel}: Recovering Draft Genomes
of Novel Viruses and Phages in Metagenomic Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "391--408",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0397",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0397;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0397",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 January 2023",
}
@Article{Tan:2023:NNM,
author = "Jiahui Tan and Yutong Zhao and Cara C. Burns and
Dechao Tian and Kun Zhao",
title = "Novel Network Method Major Minor Variation Clustering
Enables Identification of Poliovirus Clusters with
High-Resolution Linkages",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "409--419",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0292",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0292;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0292",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 September 2022",
}
@Article{Campo:2023:NIT,
author = "David S. Campo and Alexander Mosa and Yury Khudyakov",
title = "A Novel Information-Theory-Based Genetic Distance That
Approximates Phenotypic Differences",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "420--431",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0395",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0395;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0395",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 January 2023",
}
@Article{Ali:2023:CSC,
author = "Sarwan Ali and Babatunde Bello and Zahra Tayebi and
Murray Patterson",
title = "Characterizing {SARS-CoV-2} Spike Sequences Based on
Geographical Location",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "432--445",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0391",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0391;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0391",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 January 2023",
}
@Article{Senchyna:2023:DEN,
author = "Fiona Senchyna and Rahul Singh",
title = "Dynamic Epidemiological Networks: a Data
Representation Framework for Modeling and Tracking of
{SARS-CoV-2} Variants",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "446--468",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0469",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0469;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0469",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 April 2023",
}
@Article{Chourasia:2023:REE,
author = "Prakash Chourasia and Sarwan Ali and Simone Ciccolella
and Gianluca {Della Vedova} and Murray Patterson",
title = "{Reads2Vec}: Efficient Embedding of Raw
High-Throughput Sequencing Reads Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "469--491",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0424",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0424;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0424",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2023",
}
@Article{Bunimovich:2023:LIC,
author = "Leonid Bunimovich and Athulya Ram",
title = "Local Immunodeficiency: Combining
Cross-Immunoreactivity Networks",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "492--501",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0390",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0390;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0390",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 January 2023",
}
@Article{Sahoo:2023:IBU,
author = "Bikram Sahoo and Zandra Pinnix and Seth Sims and Alex
Zelikovsky",
title = "Identifying Biomarkers Using Support Vector Machine to
Understand the Racial Disparity in Triple-Negative
Breast Cancer",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "502--517",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0422",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0422;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0422",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 January 2023",
}
@Article{Moravec:2023:TPS,
author = "Ji{\v{r}}{\'\i} C. Moravec and Robert Lanfear and
David L. Spector and Sarah D. Diermeier and Alex
Gavryushkin",
title = "Testing for Phylogenetic Signal in Single-Cell
{RNA-Seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "518--537",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0357",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0357;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0357",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 December 2022",
}
@Article{Seesi:2023:GBT,
author = "Sahar {Al Seesi} and Anas Al-okaily and Tatiana V.
Shcheglova and Elham Sherafat and Fahad H. Alqahtani
and Adam T. Hagymasi and Anupinder Kaur and Pramod K.
Srivastava and Ion I. M{\u{a}}ndoiu",
title = "{GeNeo}: a Bioinformatics Toolbox for Genomics-Guided
Neoepitope Prediction",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "4",
pages = "538--551",
month = apr,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0491",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:41 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0491;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0491",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 March 2023",
}
@Article{Tamura:2023:GDA,
author = "Takeyuki Tamura and Ai Muto-fujita and Yukako Tohsato
and Tomoyuki Kosaka",
title = "Gene Deletion Algorithms for Minimum Reaction Network
Design by Mixed-Integer Linear Programming for
Metabolite Production in Constraint-Based Models:
{gDel\_minRN}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "5",
pages = "553--568",
month = may,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0352",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:44 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0352;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0352",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 February 2023",
}
@Article{Pacinkova:2023:IBF,
author = "Anna Pa{\v{c}}{\'\i}nkov{\'a} and Vlad Popovici",
title = "{IntOMICS}: a {Bayesian} Framework for Reconstructing
Regulatory Networks Using Multi-Omics Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "5",
pages = "569--574",
month = may,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:44 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0149;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0149",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2023",
}
@Article{Li:2023:CTD,
author = "Fang-Zhen Li and Xue-Fen Zhang and Hui-Ying Cai and
Ling-Qiang Ran and Hai-Yan Zhou and Zhi-E Liu",
title = "Chromosome Three-Dimensional Structure Reconstruction:
an Iterative {ShRec3D} Algorithm",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "5",
pages = "575--587",
month = may,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0179",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:44 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0179;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0179",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2023",
}
@Article{Chen:2023:NAL,
author = "Zhijie Chen and Tianhao Yan and Zhanwen Yang",
title = "Numerical Analysis of Linearly Implicit Methods for
Discontinuous Nonlinear {Gurtin--MacCamy} Model",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "5",
pages = "588--608",
month = may,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0331",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:44 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0331;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0331",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 March 2023",
}
@Article{Son:2023:EOD,
author = "Donghui Son and Jaejik Kim",
title = "Estimation of Ordinary Differential Equation Models
for Gene Regulatory Networks Through Data Cloning",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "5",
pages = "609--618",
month = may,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0201",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:44 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0201;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0201",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 March 2023",
}
@Article{Mao:2023:GRN,
author = "Guo Mao and Zhengbin Pang and Ke Zuo and Jie Liu",
title = "Gene Regulatory Network Inference Using Convolutional
Neural Networks from {scRNA-seq} Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "5",
pages = "619--631",
month = may,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0355",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:44 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0355;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0355",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 March 2023",
}
@Article{Cavattoni:2023:CIM,
author = "Margherita Cavattoni and Matteo Comin",
title = "{ClassGraph}: Improving Metagenomic Read
Classification with Overlap Graphs",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "6",
pages = "633--647",
month = jun,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0208",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:45 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0208;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0208",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 April 2023",
}
@Article{Hasegawa:2023:ECB,
author = "Nozomi Hasegawa and Kana Shimizu",
title = "Efficient Colored {de Bruijn} Graph for Indexing
Reads",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "6",
pages = "648--662",
month = jun,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0259",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:45 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0259;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0259",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 April 2023",
}
@Article{Liu:2023:SJS,
author = "Yi Liu and Gang Li",
title = "Sure Joint Screening for High Dimensional {Cox}'s
Proportional Hazards Model Under the Case-Cohort
Design",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "6",
pages = "663--677",
month = jun,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0416",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:45 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0416;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0416",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "3 May 2023",
}
@Article{Sedaghat:2023:SSA,
author = "Nafiseh Sedaghat and Tamon Stephen and Leonid
Chindelevitch",
title = "Speeding Up the Structural Analysis of Metabolic
Network Models Using the {Fredman--Khachiyan} Algorithm
{B}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "6",
pages = "678--694",
month = jun,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0319",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:45 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0319;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0319",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 June 2023",
}
@Article{Wang:2023:PPN,
author = "Zong Wang and Qimin Zhang",
title = "Positivity-Preserving Numerical Method and Relaxed
Control for Stochastic
Susceptible--Infected--Vaccinated Epidemic Model with
{Markov} Switching",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "6",
pages = "695--725",
month = jun,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0388",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:45 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0388;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0388",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 May 2023",
}
@Article{Manes:2023:ESP,
author = "Nathan P. Manes and Jian Song and Aleksandra
Nita-lazar",
title = "{EnsMOD}: a Software Program for Omics Sample Outlier
Detection",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "6",
pages = "726--735",
month = jun,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0243",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:45 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0243;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0243",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 April 2023",
}
@Article{Jeong:2023:SIC,
author = "Hyundoo Jeong and Jos{\'e} Lugo-martinez and Anna Ritz
and Yijie Wang and Chi Zhang",
title = "{{\em Special Issue\/}} Computational Network Biology:
Modeling, Analysis, and Control {(CNB-MAC) Workshop
(2022)}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "737",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29090.hj",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29090.hj",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "5 June 2023",
}
@Article{Lim:2023:QCT,
author = "Hong Seo Lim and Peng Qiu",
title = "Quantifying Cell-Type-Specific Differences of
Single-Cell Datasets Using Uniform Manifold
Approximation and Projection for Dimension Reduction
and {Shapley} Additive {exPlanations}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "738--750",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0366",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0366;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0366",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 April 2023",
}
@Article{Niu:2023:SAG,
author = "Puhua Niu and Maria J. Soto and Shuai Huang and
Byung-jun Yoon and Edward R. Dougherty and Francis J.
Alexander and Ian Blaby and Xiaoning Qian",
title = "Sensitivity Analysis of Genome-Scale Metabolic Flux
Prediction",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "751--765",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0368",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0368;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0368",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 March 2023",
}
@Article{Robben:2023:CSW,
author = "Michael Robben and Mohammad Sadegh Nasr and Avishek
Das and Jai Prakash Veerla and Manfred Huber and Justyn
Jaworski and Jon Weidanz and Jacob Luber",
title = "Comparison of the Strengths and Weaknesses of Machine
Learning Algorithms and Feature Selection on {KEGG}
Database Microbial Gene Pathway Annotation and Its
Effects on Reconstructed Network Topology",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "766--782",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0370",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0370;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0370",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 July 2023",
}
@Article{Tavori:2023:CER,
author = "Jhonatan Tavori and Hanoch Levy",
title = "On the Convexity of the Effective Reproduction
Number",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "783--795",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0371",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0371;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0371",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 May 2023",
}
@Article{Ke:2023:GBR,
author = "Ziqi Ke and Haris Vikalo",
title = "Graph-Based Reconstruction and Analysis of Disease
Transmission Networks Using Viral Genomic Data",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "796--813",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0373",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0373;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0373",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "22 June 2023",
}
@Article{Kose:2023:GDA,
author = "Tun{\c{c}} Ba{\c{s}}ar K{\"o}se and Jiarong Li and
Anna Ritz",
title = "Growing Directed Acyclic Graphs: Optimization
Functions for Pathway Reconstruction Algorithms",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "7",
pages = "814--828",
month = jul,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0376",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:47 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0376;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0376",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "1 March 2023",
}
@Article{Cai:2023:SIPa,
author = "Zhipeng Cai and Pavel Skums and Alexander Zelikovsky",
title = "Special Issue, Part {I}: {18th International Symposium
on Bioinformatics Research and Applications (ISBRA
2022)}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "829--830",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29095.az",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29095.az",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "12 July 2023",
}
@Article{Srivatsa:2023:CES,
author = "Arjun Srivatsa and Haoyun Lei and Russell Schwartz",
title = "A Clonal Evolution Simulator for Planning Somatic
Evolution Studies",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "831--847",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0086",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0086;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0086",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 May 2023",
}
@Article{Wang:2023:ASL,
author = "Zhen-chang Wang and Jin-xing Liu and Jun-liang Shang
and Ling-yun Dai and Chun-hou Zheng and Juan Wang",
title = "{ARGLRR}: a Sparse Low-Rank Representation Single-Cell
{RNA-Sequencing} Data Clustering Method Combined with a
New Graph Regularization",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "848--860",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0077",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0077;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0077",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 July 2023",
}
@Article{Alexandrino:2023:RTD,
author = "Alexsandro Oliveira Alexandrino and Andre Rodrigues
Oliveira and G{\'e}raldine Jean and Guillaume Fertin
and Ulisses Dias and Zanoni Dias",
title = "Reversal and Transposition Distance on Unbalanced
Genomes Using Intergenic Information",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "861--876",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0087",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0087;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0087",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 May 2023",
}
@Article{Zhu:2023:GCM,
author = "Xiaoshu Zhu and Liyuan Pang and Xiaojun Ding and Wei
Lan and Shuang Meng and Xiaoqing Peng",
title = "A Gene Correlation Measurement Method for Spatial
Transcriptome Data Based on Partitioning and
Distribution",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "877--888",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0108",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0108;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0108",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 July 2023",
}
@Article{Qiao:2023:MVE,
author = "Qian Qiao and Sha-sha Yuan and Junliang Shang and
Jin-xing Liu",
title = "Multi-View Enhanced Tensor Nuclear Norm and Local
Constraint Model for Cancer Clustering and Feature Gene
Selection",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "889--899",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0107",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0107;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0107",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 July 2023",
}
@Article{Yu:2023:MLP,
author = "Ying Yu and Tian Qiu and Junwen Duan and Jianxin
Wang",
title = "Multigranularity Label Prediction Model for Automatic
International Classification of Diseases Coding in
Clinical Text",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "900--911",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0096",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0096;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0096",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 July 2023",
}
@Article{Li:2023:AIC,
author = "Xiaobo Li and Yijia Zhang and Xingwang Li and Xianwei
Pan and Jian Wang and Mingyu Lu",
title = "Automatic International Classification of Diseases
Coding via Note-Code Interaction Network with Denoising
Mechanism",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "912--925",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0079",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0079;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0079",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "10 August 2023",
}
@Article{Shen:2023:IDA,
author = "Yi Shen and Ying-lian Gao and Juan Wang and Bo-xin
Guan and Jin-xing Liu",
title = "Identification of Disease-Associated {MicroRNAs} Via
Locality-Constrained Linear Coding-Based Ensemble
Learning",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "926--936",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0084",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0084;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0084",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 July 2023",
}
@Article{Wang:2023:GRA,
author = "Ying Wang and Jin-xing Liu and Juan Wang and Junliang
Shang and Ying-lian Gao",
title = "A Graph Representation Approach Based on Light
Gradient Boosting Machine for Predicting Drug--Disease
Associations",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "8",
pages = "937--947",
month = aug,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0078",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:49 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0078;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0078",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "24 July 2023",
}
@Article{Cai:2023:SIPb,
author = "Zhipeng Cai and Pavel Skums and Alexander Zeilkovsky",
title = "Special Issue, Part 2: {18th International Symposium
on Bioinformatics Research and Applications (ISBRA
2022)}",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "949--950",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29099.az",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29099.az",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 September 2023",
}
@Article{Wang:2023:SNS,
author = "Zhichao Wang and Xuelei Li and Jianping Fan and Jintao
Meng and Zhenli Lin and Yi Pan and Yanjie Wei",
title = "{SWsnn}: a Novel Simulator for Spiking Neural
Networks",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "951--960",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0098",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0098;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0098",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 August 2023",
}
@Article{Huang:2023:HDP,
author = "An Huang and Xiaolan Xie and Xiaojun Yao and Huanxiang
Liu and Xiaoqi Wang and Shaoliang Peng",
title = "{HF-DDI}: Predicting Drug--Drug Interaction Events
Based on Multimodal Hybrid Fusion",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "961--971",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0068",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0068;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0068",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "18 August 2023",
}
@Article{Liu:2023:EMA,
author = "Da Liu and Yijia Zhang and Ming Yang and Jianyuan Yuan
and Wen Qu",
title = "Extracting Mutant-Affected Protein--Protein
Interactions via {Gaussian}-Enhanced Representation and
Contrastive Learning",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "972--984",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0080",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0080;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0080",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "7 September 2023",
}
@Article{Zhou:2023:PCI,
author = "Peixuan Zhou and Yijia Zhang and Zeqian Li and Kuo
Pang and Di Zhao",
title = "Protein Complex Identification Based on Heterogeneous
Protein Information Network",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "985--998",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0081",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0081;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0081",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 September 2023",
}
@Article{Zabel:2023:BIW,
author = "Susanne Zabel and Jennifer M{\"u}ller and Friedrich
G{\"o}tz and Kay Nieselt",
title = "{BLASTphylo}: an Interactive {Web} Tool for Taxonomic
and Phylogenetic Analysis of Prokaryotic Genes",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "999--1008",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0156",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0156;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0156",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 August 2023",
}
@Article{Juyal:2023:RVV,
author = "Akshay Juyal and Roya Hosseini and Daniel Novikov and
Mark Grinshpon and Alex Zelikovsky",
title = "Reconstruction of Viral Variants via {Monte Carlo}
Clustering",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "1009--1018",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0154",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0154;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0154",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "11 September 2023",
}
@Article{Zhong:2023:DGC,
author = "Jiancheng Zhong and Pan Cui and Yihong Zhu and Qiu
Xiao and Zuohang Qu",
title = "{DAHNGC}: a Graph Convolution Model for Drug--Disease
Association Prediction by Using Heterogeneous Network",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "1019--1033",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0135",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0135;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0135",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 September 2023",
}
@Article{Pan:2023:IFS,
author = "Liang Pan and Xia Xiao and Shengyun Liu and Shaoliang
Peng",
title = "An Integration Framework of Secure Multiparty
Computation and Deep Neural Network for Improving
Drug--Drug Interaction Predictions",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "1034--1045",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0076",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0076;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0076",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 September 2023",
}
@Article{Yordanov:2023:RES,
author = "Boyan Yordanov and Sara-jane Dunn and Colin Gravill
and Himanshu Arora and Hillel Kugler and Christoph M.
Wintersteiger",
title = "The Reasoning Engine: a Satisfiability Modulo
Theories-Based Framework for Reasoning About Discrete
Biological Models",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "9",
pages = "1046--1058",
month = sep,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0117",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:52 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0117;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0117",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 September 2023",
}
@Article{Wilson:2023:ISC,
author = "Tom Wilson and Duong H. T. Vo and Thomas Thorne",
title = "Identifying Subpopulations of Cells in Single-Cell
Transcriptomic Data: a {Bayesian} Mixture Modeling
Approach to Zero Inflation of Counts",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "10",
pages = "1059--1074",
month = oct,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0273",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:54 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0273;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0273",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2023",
}
@Article{Liang:2023:WSP,
author = "Xianglong Liang and Hokeun Sun",
title = "Weighted Selection Probability to Prioritize
Susceptible Rare Variants in Multi-Phenotype
Association Studies with Application to a Soybean
Genetic Data Set",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "10",
pages = "1075--1088",
month = oct,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0487",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:54 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0487;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0487",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2023",
}
@Article{Nakajima:2023:CDR,
author = "Masaru Nakajima and Andrew D. Smith",
title = "Counting Distinguishable {RNA} Secondary Structures",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "10",
pages = "1089--1097",
month = oct,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0501",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:54 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0501;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0501",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 October 2023",
}
@Article{Yang:2023:NAS,
author = "Xiaochen Yang and Zhanwen Yang and Chiping Zhang",
title = "Numerical Analysis of Split-Step Backward {Euler}
Method with Truncated {Wiener} Process for a Stochastic
Susceptible-Infected-Susceptible Model",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "10",
pages = "1098--1111",
month = oct,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0462",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:54 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0462;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0462",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 October 2023",
}
@Article{Kanlaya:2023:CDC,
author = "Arunothai Kanlaya and Chakkrid Klin-eam",
title = "Constructing Double Cyclic Codes over {F2+uF2} for
{DNA} Codes",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "10",
pages = "1112--1130",
month = oct,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0151",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:54 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0151;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0151",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 October 2023",
}
@Article{Zou:2023:ILO,
author = "Hongliang Zou and Wanting Yu",
title = "Integrating Low-Order and High-Order Correlation
Information for Identifying Phage Virion Proteins",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "10",
pages = "1131--1143",
month = oct,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0237",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:54 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0237;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0237",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 September 2023",
}
@Article{Tang:2023:PRS,
author = "Haixu Tang",
title = "Preface: {RECOMB 2023} Special Issue",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1145",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.29101.ht",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.29101.ht",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 November 2023",
}
@Article{Tabatabaee:2023:QSP,
author = "Yasamin Tabatabaee and Sebastien Roch and Tandy
Warnow",
title = "{QR-STAR}: a Polynomial-Time Statistically Consistent
Method for Rooting Species Trees Under the Coalescent",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1146--1181",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0185",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0185;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0185",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2023",
}
@Article{Chandra:2023:GSC,
author = "Ghanshyam Chandra and Chirag Jain",
title = "Gap-Sensitive Colinear Chaining Algorithms for Acyclic
Pangenome Graphs",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1182--1197",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0186",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0186;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0186",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 October 2023",
}
@Article{Krieger:2023:SHD,
author = "Spencer Krieger and John Kececioglu",
title = "Shortest Hyperpaths in Directed Hypergraphs for
Reaction Pathway Inference",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1198--1225",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0242",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0242;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0242",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "31 October 2023",
}
@Article{Ozcelik:2023:FIG,
author = "R{\i}za {\"O}z{\c{c}}elik and Alperen Ba{\u{g}} and
Berk Atil and Melih Barsbey and Arzucan {\"O}zg{\"u}r
and Elif Ozkirimli",
title = "A Framework for Improving the Generalizability of
Drug--Target Affinity Prediction Models",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1226--1239",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0208",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0208;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0208",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 November 2023",
}
@Article{Barsbey:2023:CST,
author = "Melih Barsbey and R{\i}za {\"O}z{\c{c}}elik and
Alperen Ba{\u{g}} and Berk Atil and Arzucan
{\"O}zg{\"u}r and Elif Ozkirimli",
title = "A Computational Software for Training Robust
Drug--Target Affinity Prediction Models:
pydebiaseddta",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1240--1245",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0194",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0194;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0194",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 November 2023",
}
@Article{Zhang:2023:PPI,
author = "Chihao Zhang and Shihua Zhang and Jingyi Jessica Li",
title = "A {Python} Package \pkg{itca} for
Information-Theoretic Classification Accuracy: a
Criterion That Guides Data-Driven Combination of
Ambiguous Outcome Labels in Multiclass Classification",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "11",
pages = "1246--1249",
month = nov,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0191",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:56 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
https://www.math.utah.edu/pub/tex/bib/python.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0191;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0191",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 November 2023",
}
@Article{Zheng:2023:CUM,
author = "Hongyu Zheng and Guillaume Mar{\c{c}}ais and Carl
Kingsford",
title = "Creating and Using Minimizer Sketches in Computational
Genomics",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "12",
pages = "1251--1276",
month = dec,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0094",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:58 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0094;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0094",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 August 2023",
}
@Article{Silva:2023:BFA,
author = "Luiz A. G. Silva and Luis A. B. Kowada and Maria E. M.
T. Walter",
title = "A Barrier for Further Approximating Sorting by
Transpositions",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "12",
pages = "1277--1288",
month = dec,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0138",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:58 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0138;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0138",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 October 2023",
}
@Article{Su:2023:EGE,
author = "Rui Su and Jujuan Zhuang and Shuhan Liu and Di Liu and
Kexin Feng",
title = "{EnILs}: a General Ensemble Computational Approach for
Predicting Inducing Peptides of Multiple Interleukins",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "12",
pages = "1289--1304",
month = dec,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0002",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:58 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0002;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0002",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 November 2023",
}
@Article{Jain:2023:HAM,
author = "Shipra Jain and Kawal Preet Kaur Malhotra and Sumeet
Patiyal and Gajendra Pal Singh Raghava",
title = "A Highly Accurate Model for Screening Prostate Cancer
Using Propensity Index Panel of Ten Genes",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "12",
pages = "1305--1314",
month = dec,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0040",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:58 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/fpi/10.1089/cmb.2023.0040;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0040",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 November 2023",
}
@Article{Rozas:2023:PDP,
author = "Gladys M. Cavero Rozas and Jose M. Cisneros Mandujano
and Yomali A. Ferreyra Chombo and Daniela V. Moreno
Rencoret and Yerko M. Ortiz Mora and Mart{\'\i}n E.
Guti{\'e}rrez Pescarmona and Alberto J. Donayre
Torres",
title = "\pkg{pyBrick-DNA}: a {Python}-Based Environment for
Automated Genetic Component Assembly",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "12",
pages = "1315--1321",
month = dec,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0008",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:58 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
https://www.math.utah.edu/pub/tex/bib/python.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0008;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0008",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 November 2023",
}
@Article{Jastrzebski:2023:IRP,
author = "Jan Pawel Jastrzebski and Stefano Pascarella and
Aleksandra Lipka and Slawomir Dorocki",
title = "\pkg{IncRna}: The {R} Package for Optimizing {lncRNA}
Identification Processes",
journal = j-J-COMPUT-BIOL,
volume = "30",
number = "12",
pages = "1322--1326",
month = dec,
year = "2023",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0091",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:00:58 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib;
https://www.math.utah.edu/pub/tex/bib/s-plus.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0091;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0091",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 October 2023",
}
@Article{Anonymous:2024:AR,
author = "Anonymous",
title = "Acknowledgment of Reviewers 2023",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "1",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2024.29108.ack",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2024.29108.ack",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 December 2023",
}
@Article{Hoang:2024:DCO,
author = "Minh Hoang and Guillaume Mar{\c{c}}ais and Carl
Kingsford",
title = "Density and Conservation Optimization of the
Generalized Masked-Minimizer Sketching Scheme",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "2--20",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0212",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0212;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0212",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 November 2023",
}
@Article{Croydon-veleslavov:2024:RDS,
author = "Ivan A. Croydon-veleslavov and Michael P. H. Stumpf",
title = "Repeated Decision Stumping Distils Simple Rules from
Single-Cell Data",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "21--40",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2021.0613",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2021.0613;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2021.0613",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 January 2024",
}
@Article{Jiang:2024:QMS,
author = "Hao Jiang and Jingxin Liu and You Song and Jinzhi
Lei",
title = "Quantitative Modeling of Stemness in Single-Cell {RNA}
Sequencing Data: a Nonlinear One-Class Support Vector
Machine Method",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "41--57",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2022.0484",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2022.0484;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2022.0484",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 November 2023",
}
@Article{Qi:2024:CTU,
author = "Yuanyuan Qi and Mohammed El-kebir",
title = "Consensus Tree Under the Ancestor--Descendant Distance
is {NP-Hard}",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "58--70",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0262",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0262;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0262",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 November 2023",
}
@Article{Lee:2024:GSM,
author = "Hajoung Lee and Jaejik Kim",
title = "A Gene Selection Method Considering Measurement
Errors",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "71--82",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0041",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0041;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0041",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "21 November 2023",
}
@Article{Mehrzadi:2024:MGM,
author = "Arash Mehrzadi and Elham Rezaee and Sajjad Gharaghani
and Zeynab Fakhar and Seyed Mohsen Mirhosseini",
title = "A Molecular Generative Model of {COVID-19} Main
Protease Inhibitors Using Long Short-Term Memory-Based
Recurrent Neural Network",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "1",
pages = "83--98",
month = jan,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0064",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:01 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0064;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0064",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "6 December 2023",
}
@Article{Song:2024:PPI,
author = "Junrong Song and Zhiming Song and Jinpeng Zhang and
Yuanli Gong",
title = "Privacy-Preserving Identification of Cancer
Subtype-Specific Driver Genes Based on Multigenomics
Data with Privatedriver",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "2",
pages = "99--116",
month = feb,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0115",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:03 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0115;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0115",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 January 2024",
}
@Article{Karlebach:2024:CMB,
author = "Guy Karlebach and Peter N. Robinson",
title = "Computing Minimal {Boolean} Models of Gene Regulatory
Networks",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "2",
pages = "117--127",
month = feb,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0122",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:03 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0122;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0122",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 October 2023",
}
@Article{Wang:2024:CPT,
author = "Zihan Wang and Mengxia Xu and Zonglin Yang and Yu Jin
and Yong Zhang",
title = "Comparing the Performance of Three Computational
Methods for Estimating the Effective Reproduction
Number",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "2",
pages = "128--146",
month = feb,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0065",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:03 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0065;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0065",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 January 2024",
}
@Article{Xiang:2024:DDL,
author = "Xiaoyang Xiang and Jiaxuan Gao and Yanrui Ding",
title = "{DeepPPThermo}: a Deep Learning Framework for
Predicting Protein Thermostability Combining
Protein-Level and Amino Acid-Level Features",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "2",
pages = "147--160",
month = feb,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0097",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:03 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0097;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0097",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "13 December 2023",
}
@Article{Jia:2024:III,
author = "Jianhua Jia and Genqiang Wu and Meifang Li",
title = "{iGly-IDN}: Identifying {Lysine} Glycation Sites in
Proteins Based on Improved {DenseNet}",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "2",
pages = "161--174",
month = feb,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0112",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:03 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0112;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0112",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "28 November 2023",
}
@Article{Ogurtsov:2024:MGG,
author = "Aleksey Ogurtsov and Gelio Alves and Alex Rubio and
Brendan Joyce and Bj{\"o}rn Andersson and Roger
Karlsson and Edward R. B. Moore and Yi-Kuo Yu",
title = "\pkg{MiCId GUI}: The Graphical User Interface for
\pkg{MiCId}, a Fast Microorganism Classification and
Identification Workflow with Accurate Statistics and
High Recall",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "2",
pages = "175--178",
month = feb,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0149",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:03 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0149;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0149",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "2 February 2024",
}
@Article{Gu:2024:DEP,
author = "Xinyu Gu and Yuanyuan Qi and Mohammed El-kebir",
title = "{DERNA} Enables {Pareto} Optimal {RNA} Design",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "3",
pages = "179--196",
month = mar,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0283",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:05 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0283;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0283",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "27 February 2024",
}
@Article{Bataa:2024:FHS,
author = "Magsarjav Bataa and Siwoo Song and Kunsoo Park and
Miran Kim and Jung Hee Cheon and Sun Kim",
title = "Finding Highly Similar Regions of Genomic Sequences
Through Homomorphic Encryption",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "3",
pages = "197--212",
month = mar,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0050",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:05 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0050;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0050",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 March 2024",
}
@Article{Ma:2024:TRS,
author = "Hehuan Ma and Feng Jiang and Yu Rong and Yuzhi Guo and
Junzhou Huang",
title = "Toward Robust Self-Training Paradigm for Molecular
Prediction Tasks",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "3",
pages = "213--228",
month = mar,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0187",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:05 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0187;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0187",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "26 March 2024",
}
@Article{Baird:2024:GTG,
author = "Tarrion Baird and Rahul Roychoudhuri",
title = "{GS-TCGA}: Gene Set-Based Analysis of {{\booktitle{The
Cancer Genome Atlas}}}",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "3",
pages = "229--240",
month = mar,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0278",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:05 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0278;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0278",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "4 March 2024",
}
@Article{Yao:2024:PMD,
author = "Hai-bin Yao and Zhen-jie Hou and Wen-guang Zhang and
Han Li and Yan Chen",
title = "Prediction of {MicroRNA-Disease} Potential Association
Based on Sparse Learning and Multilayer Random Walks",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "3",
pages = "241--256",
month = mar,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0266",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:05 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0266;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0266",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "19 February 2024",
}
@Article{Park:2024:UGR,
author = "Heewon Park",
title = "Unveiling Gene Regulatory Networks That Characterize
Difference of Molecular Interplays Between Gastric
Cancer Drug Sensitive and Resistance Cell Lines",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "3",
pages = "257--274",
month = mar,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0215",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:05 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0215;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0215",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "23 February 2024",
}
@Article{Editor:2024:RSC,
author = "Tomas VinarGuest Editor",
title = "{RECOMB} Satellite Conference on Comparative Genomics
({RECOMB-CG 2023})",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "275--276",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2024.29113.tv",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/reader/10.1089/cmb.2024.29113.tv",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "9 April 2024",
}
@Article{Ouedraogo:2024:OPR,
author = "Wend Yam D. D. Ouedraogo and Aida Ouangraoua",
title = "Orthology and Paralogy Relationships at Transcript
Level",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "277--293",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0400",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0400;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0400",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 April 2024",
}
@Article{Bohnenkamper:2024:FLH,
author = "Leonard Bohnenk{\"a}mper",
title = "The Floor Is Lava: Halving Natural Genomes with
Viaducts, Piers, and Pontoons",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "294--311",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0330",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0330;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0330",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "15 April 2024",
}
@Article{Wagle:2024:ACB,
author = "Sanket Wagle and Alexey Markin and Pawe{\l}
G{\'o}recki and Tavis K. Anderson and Oliver
Eulenstein",
title = "Asymmetric Cluster-Based Measures for Comparative
Phylogenetics",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "312--327",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0338",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0338;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0338",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "17 April 2024",
}
@Article{Khayatian:2024:RFD,
author = "Elahe Khayatian and Gabriel Valiente and Louxin
Zhang",
title = "The $k$-{Robinson--Foulds} Dissimilarity Measures for
Comparison of Labeled Trees",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "328--344",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0312",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0312;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0312",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "25 January 2024",
}
@Article{Wu:2024:CBN,
author = "Yufeng Wu and Louxin Zhang",
title = "Computing the Bounds of the Number of Reticulations in
a Tree--Child Network That Displays a Set of Trees",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "345--359",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0309",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0309;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0309",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "29 January 2024",
}
@Article{Landry:2024:FPT,
author = "Kaari Landry and Olivier Tremblay-savard and Manuel
Lafond",
title = "A Fixed-Parameter Tractable Algorithm for Finding
Agreement Cherry-Reduced Subnetworks in Level-1 Orchard
Networks",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "4",
pages = "360--379",
month = apr,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0317",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:07 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0317;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0317",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "20 December 2023",
}
@Article{Yu:2024:MCF,
author = "Yun William Yu",
title = "On Minimizers and Convolutional Filters: Theoretical
Connections and Applications to Genome Analysis",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "5",
pages = "381--395",
month = may,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2024.0483",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:09 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2024.0483;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2024.0483",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 April 2024",
}
@Article{Roddur:2024:ETC,
author = "Mrinmoy Saha Roddur and Sagi Snir and Mohammed
El-Kebir",
title = "Enforcing Temporal Consistency in Migration History
Inference",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "5",
pages = "396--415",
month = may,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0352",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:09 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0352;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0352",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 May 2024",
}
@Article{Arbib:2024:ILP,
author = "Claudio Arbib and Andrea D'ascenzo and Fabrizio Rossi
and Daniele Santoni",
title = "An Integer Linear Programming Model to Optimize Coding
{DNA} Sequences By Joint Control of Transcript
Indicators",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "5",
pages = "416--428",
month = may,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0166",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:09 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0166;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0166",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "30 April 2024",
}
@Article{Ferdous:2024:MFW,
author = "Jannatul Ferdous and George Matthew Fricke and Melanie
E. Moses",
title = "More Is Faster: Why Population Size Matters in
Biological Search",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "5",
pages = "429--444",
month = may,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0296",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:09 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0296;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0296",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "16 May 2024",
}
@Article{Xia:2024:BCP,
author = "Juan Xia and Yuxia Li and Haotian Zhu and Feiyang Xue
and Feng Shi and Nana Li",
title = "A {Bayesian} Change Point Model for Dynamic
Alternative Transcription Start Site Usage During
Cellular Differentiation",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "5",
pages = "445--457",
month = may,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0174",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:09 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0174;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0174",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 May 2024",
}
@Article{Mohammed:2024:SVD,
author = "Isra Mohammed and Murtada K. Elbashir and Areeg S.
Faggad",
title = "Singular Value Decomposition-Based Penalized
Multinomial Regression for Classifying Imbalanced
Medulloblastoma Subgroups Using Methylation Data",
journal = j-J-COMPUT-BIOL,
volume = "31",
number = "5",
pages = "458--471",
month = may,
year = "2024",
CODEN = "JCOBEM",
DOI = "https://doi.org/10.1089/cmb.2023.0198",
ISSN = "1066-5277 (print), 1557-8666 (electronic)",
ISSN-L = "1066-5277",
bibdate = "Tue May 28 16:19:09 MDT 2024",
bibsource = "https://www.math.utah.edu/pub/tex/bib/jcomputbiol.bib",
URL = "https://www.liebertpub.com/doi/abs/10.1089/cmb.2023.0198;
https://www.liebertpub.com/doi/reader/10.1089/cmb.2023.0198",
acknowledgement = ack-nhfb,
ajournal = "J. Comput. Biol.",
fjournal = "Journal of Computational Biology",
journal-URL = "https://www.liebertpub.com/loi/cmb/",
onlinedate = "14 May 2024",
}
