NA Digest Sunday, January 17, 2016 Volume 16 : Issue 3

Today's Editor:
Daniel M. Dunlavy
Sandia National Labs

Submissions for NA Digest:


From: Luca Gerardo-Giorda
Date: January 14, 2016
Subject: Quantitative Biomedicine for Health and Disease, Spain, Feb 2016

Quantitative Biomedicine for Health and Disease
24 - 25 February 2016
BCAM - Basque Center for Applied Mathematics
Alameda Mazarredo, 14 - 48009 Bilbao, Basque Country-Spain
Phone (+34) 946567842

BCAM is pleased to announce the second workshop on Quantitative
Biomedicine for Health and Disease. The aim of the workshop is to
bring together quantitative researchers of varied background working
in biomedical sciences. Particular attention will be given to clinical

Confirmed Speakers: Rafael MOLINA SORIANO (University of Granada);
Cesar CABALLERO (BCBL); Iñigo GABILONDO (BioCruces); Banafshe LARIJANI
(CSIC-UPV/EHU); Markus DAHLEM (Institut für Theoretische
Physik-Technische Universität Berlin); Paolo BONIFAZI (BioCruces);
Eugenio IGLESIAS (BCBL); Mauro D'AMATO (BioCruces); Dante CHIALVO
(CONICET); Denis DOORLY (Imperial College London); Alessandro
VENEZIANI (Emory); Daniela CALVETTI (Case Western University); Iñaki
LOPEZ (Cruces Hospital)

The registration fee is 50 Euros (including coffee breaks and lunches).
Inscription is required by email at

Abstracts (one single .pdf page) can be submitted by January 22.

Further information & contact email:


From: Damon McDougall
Date: January 13, 2016
Subject: Scientific Software Days, USA, Feb 2016

Registration is open for the 7th Annual Scientific Software Days
conference. Register here:

The 7th Annual Scientific Software Days Conference (SSD) targets users
and developers of scientific software. The conference will be held at
the University of Texas at Austin Thursday Feb 25 - Friday Feb 26,
2016 and focuses on two themes:
a) sharing best practices across scientific software communities;
b) sharing the latest tools and technology relevant to scientific

This year's list of speakers include: Brian Adams (Sandia, Dakota);
Iain Dunning (MIT, Julia Project); Victor Eijkhout (TACC); Robert van
de Geijn (keynote, UT Austin, libflame); Jeff Hammond (Intel, nwchem);
Mark Hoemmen (keynote, Sandia, Trilinos); James Howison (UT Austin);
Fernando Perez (Berkeley, IPython); Cory Quammen (Kitware,
Paraview/VTK); Ridgway Scott (UChicago, FEniCS); and Roy Stogner (UT
Austin, LibMesh).

In addition, we solicit poster submissions that share novel uses of
scientific software. Please send an abstract of less than 250 words
to Limited travel funding for
students and early career researchers who present posters will be

Register online here:


From: Anja Milde
Date: January 11, 2016
Subject: Mathematical MSO in Food Industries, Germany, Mar 2016

KoMSO Challenge Workshop on "Mathematical Modeling, Simulation and
Optimization in Food Industries", March 17-18, 2016, Trier University

The industrial production and handling of food poses interesting and
challenging mathematical questions of non-standard nature. This
workshop will discuss a wide range of mathematical aspects in food
industry. These range from modeling, simulation and optimization of
growth and microbial activity over food processing with aromatic
facets up to logistics of distribution. The aim of this workshop is to
bring together people from food industries and from academia in order
to find mathematical challenges of common interests and to foster
synergies and collaborations.

We kindly invite your contribution and participation. Note that the
number of participants is limited. Please register and submit your
abstracts for presentation at Preferred
workshop language is English.

Abstract Submission: January 31, 2016
Registration: March 6, 2016

Confirmed Speakers
Adam Burbidge (Nestlé Lausanne, Taste and Behavioral Sciences)
Natalie Germann (School of Life Sciences Weihenstephan, Technical
University Munich)
Wine experts from the Rhine, Main and Moselle regions

This event is jointly hosted by Trier University and KoMSO, and
sponsored by the Federal Ministry of Education and Research (BMBF).


From: Dominik Meidner
Date: January 15, 2016
Subject: OCIP2016, Germany, Mar 2016

Numerical Methods for Optimal Control and Inverse Problems (OCIP2016),
2016, March 14 - 16,

This workshop is organized by Dominik Meidner, Michael Ulbrich,
Barbara Wohlmuth and Boris Vexler with support by the international
research training group IGDK Munich-Graz, see

The workshop will take place at Technical University of Munich (TUM,
Garching b. Munich, Germany). The former workshops in this series
(OCIP2011-2015) were with about 70 participants very successful.

The deadline of the abstract submission is January 31, 2016.


From: Philipp Schulze
Date: January 12, 2016
Subject: Summer School and Workshop, Port-Hamiltonian Systems, Germany, Apr 2016

Summer School: "Energy Based Modeling, Simulation, and Control of
Complex Physical Systems" in Berlin, Germany, April 4-6, 2016.

The SAMM Summer School provides an introduction to energy based
modeling, simulation, and control of complex physical systems with
particular emphasis on port-Hamiltonian systems. Port-Hamiltonian
systems extend classical Hamiltonian systems by incorporating
internal and external ports accounting for the storage,
dissipation, and exchange of energy. This is a generic modeling
concept which among other things allows for the efficient and
natural modeling of multi-physics systems and networks.

Summer School Lecturers:
Peter Breedveld (University of Twente)
Arjan van der Schaft (University of Groningen)

Important Dates:
Scholarship Application Deadline: January 31, 2016
Notification of Scholars: February 15, 2016
Registration Deadline: February 29, 2016

Workshop: "Energy Based Modeling, Simulation, and Control of Complex
Physical Systems" in Berlin, Germany, April 7-8, 2016.

The Workshop aims to bring together students, researchers, and
professionals from applied mathematics and application sciences, as
physics, engineering, and chemistry that are interested in
port-Hamiltonian systems and energy-based methods.

Invited Speakers:
Peter Breedveld (University of Twente)
Carsten Hartmann (Freie Universität Berlin)
Hector Ramirez (University of Franche-Comté)
Arjan van der Schaft (University of Groningen)

Important Dates:
Deadline Abstract Submission: January 31, 2016
Notification of Authors: February 15, 2016
Registration Deadline: February 29, 2016


From: Per Christian Hansen
Date: January 14, 2016
Subject: Training School and Workshop on Tomography, Denmark, Apr 2016

We announce two back-to-back activities in computed tomography at the
Technical University of Denmark:

April 4-6: Training School on Algebraic Reconstruction Methods in
Tomography (

April 6-8: HD-Tomo Days (

In the training school we describe the reconstruction methods, the
associated algebraic models, and the underlying linear algebra,
followed by MATLAB computer exercises that illustrate these methods.
The goal is that to provide the participants with a basic
understanding of the formulation, implementation, and use of the
algebraic methods, such that they can use them for their own CT

The workshop aims at bringing together researchers in mathematical and
computational aspects of tomographic imaging methods that build on PDE
analysis regularization, and optimization. It will feature invited and
contributed talks, poster presentations, and dedicated discussion
sessions. The goal is to demonstrate the latest research by leading
experts, to allow young researchers a chance to present their work,
and to provide a forum for exchange of knowledge, perspectives, and

Deadline for registration is Feb. 29. There is no registration fee;
participants must arrange travel and accommodation themselves. See:


From: Liu Bie Ju Centre for Mathematical Sciences
Date: January 10, 2016
Subject: Applied Mathematics, Hong Kong, May 2016

The Liu Bie Ju Centre for Mathematical Sciences (LBJ Centre) of City
University of Hong Kong (CityU) is organizing the "International
Conference on Applied Mathematics 2016" from 30 May to 2 June 2016.
The conference will comprise plenary and invited talks by world
renowned mathematicians.

At the conference, the winner of 2016 William Benter Prize in Applied
Mathematics will be announced, and the award recipient will present a
lecture about his/her work. The aim of the Prize is to recognize
outstanding mathematical contributions that have had a direct and
fundamental impact on scientific, business, finance and engineering

Plenary Speakers :
Ingrid Daubechies, Princeton University, USA / Duke University, USA
Martin Golubitsky, Ohio State University, USA
Alberto Grünbaum, University of California (Berkeley), USA
Max Gunzburger, Florida State University, USA
Stanley Osher, University of California (Los Angeles), USA
Chi-Wang Shu, Brown University, USA
Andrew Stuart, University of Warwick, UK


From: Greg Fasshauer
Date: January 14, 2016
Subject: Approximation Theory, USA, May 2016

15th International Conference in APPROXIMATION THEORY
San Antonio, Texas, May 22 -- 25, 2016

Josef Dick, University of New South Wales
Simon Foucart, Texas A&M University
Elisabeth Larsson, Uppsala University
Doron Lubinsky, Georgia Tech
Carla Manni, University di Roma "Tor Vergata"
Mike Neamtu, Vanderbilt University
Ulrich Reif, Technical University of Darmstadt

SUPPORT FOR YOUNG RESEARCHERS. We anticipate being able to provide
financial support for graduate students and early career researchers.
Women and underrepresented minorities are especially encouraged to
apply. See the conference website for further details.

POPOV PRIZE. The eighth Vasil A. Popov Prize will be awarded at the

Travel Support: April 1, 2016
Abstract Submission: April 30, 2016
Online Registration: May 18, 2016

For details on the conference proceedings, contributed lectures,
travel support, and other information about the conference, please
visit the conference website.


From: Roumen Anguelov
Date: January 13, 2016
Subject: BIOMATH 2016, Bulgaria, Jun 2016

BIOMATH 2016: International Conference on Mathematical Methods and
Models in Biosciences takes place from 19 to 25 June 2016 in
Blagoevgrad, Bulgaria. BIOMATH conferences are multidisciplinary
meeting forums for researchers who develop and apply mathematical and
computational tools to the study of phenomena in the broad fields of
biology, ecology, medicine, biotechnology, bioengineering,
environmental science, etc. Contributed talks in any of these fields
are invited.

Deadline for abstract submission: 25 March 2016.

Selected papers will be published in special issues of the journals:
Biomath and Mathematical Methods in the Applied Sciences.

Manuscripts submission deadline: 30 September 2016.


From: Stefan Vandewalle
Date: January 16, 2016
Subject: EUCCO2016 Optimization, Belgium, Sep 2016

EUCCO2016, the 4th European Conference on Computational Optimization,
will be held in Leuven, Belgium, September 12 – 14, 2016.

The conference is organised by the University of Leuven, Center of
Excellence on in Engineering (OPTEC), and by the TEMPO Marie Curie
Initial Training Network: Training in Embedded Predictive Control and

The conference aims to bring together researchers who are active in
the areas of computational optimization, algorithms and applications.
EUCCO2016 will have special emphasis on Embedded Optimization and
Optimization in Engineering, but it will also continue the traditional
EUCCO focus on large scale optimization, optimization with partial
differential equations, and numerical optimization algorithms and

Invited plenary speakers are: Stephen Boyd (Stanford, USA), Yurii
Nesterov (Louvain, Belgium), Sina Ober-Bloebaum (Oxford, UK), Colin
Jones (Lausanne, Switzerland), Niels Aage (Lyngby, Denmark), Marc
Teboulle (Tel-Aviv, Israel), and Boris Vexler (Munich, Germany).

For additional information, please visit the conference webpage


From: Pamela Bye
Date: January 13, 2016
Subject: Numerical Linear Algebra and Optimisation, UK, Sep 2016

University of Birmingham, UK
7-9 September 2016

The IMA and the University of Birmingham are pleased to announce the
Fifth IMA Conference on Numerical Linear Algebra and Optimization. The
meeting is co-sponsored by SIAM, whose members will receive the IMA
members' registration rate.

The success of modern codes for large-scale optimization is heavily
dependent on the use of effective tools of numerical linear
algebra. On the other hand, many problems in numerical linear algebra
lead to linear, nonlinear or semidefinite optimization problems. The
purpose of the conference is to bring together researchers from both
communities and to find and communicate points and topics of common

Conference topics: Direct and iterative methods for large sparse
linear systems. Eigenvalue computation and optimization. Large-scale
nonlinear and semidefinite programming. Effect of round-off errors,
stopping criteria, embedded iterative procedures. Optimization issues
for matrix polynomials. Fast matrix computations. Compressed/sparse
sensing. PDE-constrained optimization. Distributed computing and
optimization. Applications and real time optimization.

Invited speakers: Tim Davis Anders Forsgren Andreas Frommer Jacek
Gondzio Laura Grigori Jennifer Scott Lieven Vandenberghe

Mini-symposium proposals and contributed talks are invited on all
aspects of numerical linear algebra and optimization. Mini-symposium
proposals should be submitted to by 31 March
2016. A mini-symposium is limited to at most two sessions on a single
topic (maximum eight speakers). Organisers will be advised of
acceptance by 11 April 2016. Contributed talks and mini-symposia talks
will be accepted on the basis of a one page extended abstract which
should be submitted by 30 April 2016 by e-mail to Authors will be advised of acceptance by 31
May 2016. A book of abstracts will be made available to delegates at
the conference.


From: C. Vergara
Date: January 12, 2016
Subject: SIMAI Conference 2016, Italy, Sep 2016

The next SIMAI conference will take place in Milan (hosted By
Politecnico di Milano) from the 13th to the 16th of September 2016,

Submission of proposal for minisimposia and of contributed talks is
now OPEN. Submission process is handled by the EKO system of
Politecnico di Milano.

Please follow closely the instructions on

In particular to submit you have *first* to login into the EKO system:
- if you are already registered on the Politecnico di Milano data base
(faculty, post-docs, collaborators, PhD and Master students of
Politecnico, or people who have already participated to other EKO
conferences) you *should just log in* using the LOG IN tab at the
upper right of the page
- otherwise you have to register using the REGISTER tab at the upper
right of the page and fill the form.

Then you can click on the tab SUBMISSION. Please follow the rules for
preparation of the abstract by using the LaTeX templates you find in
the given web page. The submission does not imply the payment of fees,
which will be asked only after final acceptance, with the final
registration of the participants to the conference.

Conference deadlines are reported in the conference main page

For any question send a message to


From: Stig Larsson
Date: January 15, 2016
Subject: Professor Position, Applied Mathematics, Gothenburg, Sweden

The Division of Mathematics at the Department of Mathematical Sciences
at Chalmers University of Technology, Gothenburg, Sweden, invites
applications for a position as Full Professor in Applied Mathematics.

Closing date: February 29, 2016.

For more information and application procedure see


From: Peter Knabner
Date: January 12, 2016
Subject: Postdoc Position, Univ of Erlangen-Nuernberg

In the group of Prof. Peter Knabner at the Department of Mathematics
of the University of Erlangen-Nuernberg (Germany) there is an open
postdoctoral position in the area of

Numerical Methods for Multicomponent Reactive Transport Problems in
Porous Media

starting spring 2016. The position is connected with teaching duties
in the mathematics education of engineering students (scope 5 hour per

The position will end at the end of 2017; a prolongation is
possible. The salary is according to the German civil service tariff
E13 TV-L.

Candidates should have a strong background in numerical methods for
partial differential equations, including experience of programming
and implementation of numerical methods. The applicant is supposed to
further develop our proprietary C++ software.

If you are interested to join the group, we are happy to receive your
application (e-mail:


From: Ke Chen
Date: January 11, 2016
Subject: Postdoc Positions, Multiscales and Imaging, Liverpool, UK

Two postdoctoral positions in respective areas of Multi-scale Modeling
and Image Segmentation Modeling are available at the Department of
Mathematical Sciences, University of Liverpool, under the supervision
of a multidisciplinary team of researchers. The posts are funded
through the newly formed EPSRC Liverpool Centre for Mathematics in
Healthcare (LCMH, one of the 5 EPSRC Centres in UK), with 7 more posts
to be advertised in the next 12 months.

PhD in the modelling areas related to the projects with relevant
experience, an excellent theoretical background in partial
differential equations and/or exceptional computational modelling
skills are required. Strong research track record is essential.

Duration: 2 years
Starting date: March 2016 or soon after.
Application closing date: February 5, 2016

More information and online application form:

Contact: Prof. Ke Chen, Director of LCMH


From: Frank Knoben
Date: January 14, 2016
Subject: PhD/Postdoc Position, RWTH Aachen, Germany

At the Chair for Numerical Mathematics of the RWTH Aachen University
we are currently offering a full PhD/postdoc position. In our group
we work on the analysis, implementation and application of numerical
simulation methods for partial differential equations. A main
research topic is on numerical methods for two-phase incompressible
flow problems. More information on the topic can be found on The candidates should have a university
degree ( Master or equivalent ) in mathematics, computational
engineering or a related field and should have basic knowledge on
numerical methods for PDEs. Research will be on a topic in the field
of numerical methods for partial differential equations,
e.g. discretization methods for two-phase incompressible flow problems
or for PDEs on evolving surfaces,or special preconditioning
techniques. The candidate has to carry out part of the teaching tasks
at the Chair for Numerical Mathematics.

The position is limited to 2 years, and is to be filled as soon as
possible. An extension by two more years is possible. The standard
weekly hours will be 39,83 hours. The successful candidate has the
opportunity to pursue a doctoral degree. The salary is based on the
German public service salary scale (TV-L).

RWTH Aachen University is certified as a "Family-Friendly
University". We particularly welcome and encourage applications
from women, disabled persons and ethnic minority groups,
recognizing they are underrepresented across RWTH Aachen
University. The principles of fair and open competition apply and
appointments will be made on merit.

For further information, please visit our website at:

Please send your application by February 20, 2016 to
Prof. Dr. Arnold Reusken
Lehrstuhl für Numerische Mathematik
52056 Aachen

You can also send your application via email to Please note, however, that communication
via unencrypted e-mail poses a threat to confidentiality as it is
potentially vulnerable to unauthorized access by third parties.


From: Coralia Cartis
Date: January 17, 2016
Subject: PhD Position, Climate Modelling and Optimisation, Oxford Univ

NERC Ph.D. Studentship in the Department of Earth Sciences and
Mathematical Institute, University of Oxford

Title: Ocean Biogeochemical Optimisation in ESMs (OBOE)

Supervisors: Profs. Samar Khatiwala (Earth Sciences) and Coralia
Cartis (Maths), University of Oxford; Prof. Colin Jones, NERC/Met
Office; Drs. Andrew Yool and Adrian Martin, NOCS

Start date: October 2016

As one of the principal reservoirs of CO2, the ocean plays a crucial
role in the carbon cycle and in regulating Earth's
climate. Understanding and modelling the interconnections between the
ocean carbon cycle and climate is therefore critical for robust
estimates of future climate change. A principal challenge in this
regard is the absence of well-established sets of equations governing
the behavior of marine ecosystems, which play a key role in ocean
carbon dynamics. Consequently, fundamental processes, such as the
formation and sinking of organic matter from the surface into the
ocean interior are crudely parameterised. Improving the representation
of these processes in global ocean biogeochemical models, embedded
within Earth System Models (ESMs) used to project future climate
change, is thus an important goal of current research and of this
project in particular. Specifically, we seek to evaluate and improve
the performance of MEDUSA (Model of Ecosystem Dynamics, nutrient
Utilisation, Sequestration and Acidification), the ocean
biogeochemical model in the next generation Met Office/NERC Earth
system model (UKESM), currently under development. MEDUSA models the
interaction between macro- and micro-nutrients, phytoplankton and
carbon, representing these processes through a range of
parameterisations that include a number of key uncertain
parameters. We seek to improve the underlying formulation of these
parameters to better represent available observational constraints.

Eligibility: UK/EU students with a good (2.1 or higher, or its
equivalent) first degree in the natural sciences, maths or engineering
and strong computing skills are encouraged to apply.

Application process: To apply follow the instructions at Informal inquiries may
be directed to: Samar Khatiwala ( or to
Coralia Cartis (


From: Piotr Matus
Date: January 14, 2016
Subject: Contents, Computational Methods in Applied Mathematics, 16 (1)

Dual-Dual Formulation for a Contact Problem with Friction, Andres,
Michael / Maischak, Matthias / Stephan, Ernst P. PP. 1-16

A Fitted Finite-Volume Method Combined with the Lagrangian Derivative
for the Weather Option Pricing Model, Chang, Shuhua / Tang, Wenguang
PP. 17-34

Comparison of the Analytical Approximation Formula and Newton's Method
for Solving a Class of Nonlinear Black-Scholes Parabolic,
Equations. Ďuriš, Karol / Tan, Shih-Hau / Lai, Choi-Hong / Ševčovič,
Daniel. PP. 35-50

Mollification in Strongly Lipschitz Domains with Application to
Continuous and Discrete De Rham Complexes, Ern, Alexandre / Guermond,
Jean-Luc. PP. 51-76

Numerical Methods for Genetic Regulatory Network Identification, Based
on a Variational Approach. Feng, Xiaobing / Yoon, Miun PP. 77-104

On the Numerical Solution of Some Non-Linear Stochastic Differential
Equations Using the Semi-Discrete Method, Halidias, Nikolaos /
Stamatiou, Ioannis S. PP. 105-132

Numerical Computation of the Inverse Born Approximation for the
Nonlinear Schrödinger Equation in Two Dimensions, Harju, Markus
PP. 133-144

Efficient Computation of Highly Oscillatory Integrals by Using QTT
Tensor Approximation, Khoromskij, Boris / Veit, Alexander PP. 145-160

A Splitting Scheme to Solve an Equation for Fractional Powers of
Elliptic Operators, Vabishchevich, Petr N. PP. 161-174

Predictor-Corrector Balance Method for the Worst-Case 1D Option
Pricing, Valkov, Radoslav. PP. 175-186


From: Shan Zhao
Date: January 11, 2016
Subject: Contents, Molecular Based Mathematical Biology, 3

Molecular Based Mathematical Biology, Vol. 3, 2015. Open access, full
text PDF available at

1. Nonlocal Electrostatics in Spherical Geometries Using Eigenfunction
Expansions of Boundary-Integral Operators, Bardhan, Jaydeep P. /
Knepley, Matthew G. / Brune, Peter

2. Topological Complexity in Protein Structures, Flapan, Erica /
Heller, Gabriella

3. Curvature Concentrations on the HIV-1 Capsid, Liu, Jiangguo /
Sadre-Marandi, Farrah / Tavener, Simon / Chen, Chaoping

4. A boundary integral Poisson-Boltzmann solvers package for solvated
bimolecular simulations, Geng, Weihua

5. A topological approach for protein classification, Cang, Zixuan /
Mu, Lin / Wu, Kedi / Opron, Kristopher / Xia, Kelin / Wei, Guo-Wei

6. Fast and Robust Orientation of Cryo-Electron Microscopy Images, Xu,
Guoliang / Wang, Xia / Li, Ming / Jing, Zhucui

7. A Quantum Corrected Poisson-Nernst-Planck Model for Biological Ion
Channels, Liu, Jinn-Liang

8. Modeling and Simulation of Thermo-Fluid-Electrochemical Ion Flow in
Biological Channels, Sacco, Riccardo / Manganini, Fabio / Jerome,
Joseph W.

9. Shape Correspondence Analysis for Biomolecules Based on Volumetric
Eigenfunctions, Liao, Tao / Lee, Hao-Chih / Yang, Ge / Zhang, Yongjie

10. Membrane-Channel Protein System Mesh Construction for Finite
Element Simulations, Liu, Tiantian / Bai, Shiyang / Tu, Bin / Chen,
Minxin / Lu, Benzhuo

11. SDPBS Web Server for Calculation of Electrostatics of Ionic
Solvated Biomolecules, Jiang, Yi / Xie, Yang / Ying, Jinyong / Xie,
Dexuan / Yu, Zeyun

12. Role of Dispersion Attraction in Differential Geometry Based
Nonpolar Solvation Models, Chen, Zhan

End of Digest