ISSN 1086-6566
January 25, 2017

Information about the Society for Mathematical Biology, including an
application for membership, may be found in the SMB Home Page,

Access the Bulletin of Mathematical Biology, the official journal of SMB, at

Inquiries about membership or BMB fulfillment should be sent to

Issue's Topics:
  Registration is open for SMB 2017 Meeting July 17-20, Salt Lake City
  SMB Education Subgroup at the 2017 SMB Annual Meeting in Utah
  SMB Mathematical Neuroscience Subgroup: Goals, plans and membership
  CfP: SummerSim Bio-Medical and Population Modeling Track
  CfA: CNS*2017 Antwerp, Belgium
  CfA: Pan-microbial Trait Ecology, a NIMBioS Investigative Workshop
  Developing Efficient Methodologies for Modelling Stochastic ...
  Brains, Minds and Machines Summer Course, MBL Woods Hole
  NIMBioS/NISER Webinar: Program Evaluation 101
  Conference on Algorithms for Computational Biology, June 5-7, Aveiro
  MS/PhD Position: Bioinformatics and Computational Systems Biology
  PhD Student Position, Mathematical Ecology & Evolution, Helsinki
  CfA: Postdoctoral Fellowship in Computational Systems Biology, NIMBioS
  Postdoc, Modelling Control of Exocytosis, University of Padua
  Postdoctoral Researcher, Oregon Health & Science University
  Postdoc, Computational Biology Biocomplexity Institute, Indiana U
  Tenure-track Positions: Center for Applied Mathematics, IIIT, India
  SMBnet Reminders


From: Fred Adler <>
Date: Mon, Jan 23, 2017 at 8:23 PM
Subject: Registration is open for SMB 2017 Meeting July 17-20, Salt Lake City

Registration is now open for the annual meeting of the Society for
Mathematical Biology scheduled for July 17-20 on the campus of the University
of Utah in Salt Lake City. The deadline for early registration prices is
April 17, 2017.

Also minisymposium submissions are due by February 10, 2017. Each
minisymposium consists of four or five 20-25 minute presentations on a single
topic of substantial current interest and importance in mathematics and its
application to biology and medicine. We seek proposals that are diverse in
topics and speakers.

You can find the links and details for both of these at

and we'll be opening links to housing in the next few days.
Please send any inquiries to


From: Will Heuett <>
Date: Thu, Jan 19, 2017 at 2:11 PM
Subject: SMB Education Subgroup at the 2017 SMB Annual Meeting in Utah

The newly formed SMB Education Subgroup would like to solicit your feedback
regarding activities focused on mathematical biology education that you would
like to see sponsored at the 2017 SMB Annual Meeting. Please submit your
feedback at
by Friday, January 27.

If you have not yet joined the Education Subgroup, but you would like to,
please sign up at


From: Horacio G. Rotstein <>
Date: Tue, Jan 24, 2017 at 12:34 AM
Subject: SMB Mathematical Neuroscience Subgroup: Goals, plans and membership

Dear Colleagues

We are very happy to share with you the news of the creation of the
Mathematical Neuroscience sub-group within the Society for Mathematical
Biology (SMB). Thanks to all of you who supported this initiative by signing
the petition.

We envision this group to play an important role in identifying future
grand challenges and collectively solving new problems.

Primary Goals and grand plans

 *  to provide a forum for the promotion and advancement of interdisciplinary
    research and dissemination of knowledge in mathematical, computational
    and theoretical neuroscience.
 *  to promote the interaction between theoretical and experimental
 *  to promote education and outreach in all topics related to mathematical
 *  to organize sub-group meetings at future SMB annual meetings. The next two
    will take place in Sydney (Australia) in 2018 and Montreal (Quebec,
    Canada) in 2019.
 *  To advertise and contribute to mathematical neuroscience events of
    interest to the community, such us the upcoming International Conference
    in Mathematical Neuroscience in Boulder, CO (May 30 - June 2, 2017).
 *  To advertise the Journal of Mathematical Neuroscience (JMN) as a natural
    society/sub-group journal that is complementary to the Bulletin of
    Mathematical Biology. []
 *  To encourage the dissemination of sub-group meetings though special issues
    of the JMN (using guest editors).
 *  To raise the profile of this growing field in the wider community.


SMB, ESMTB and JSMB members are invited to join SMB MathNeuro (joint
membership is not required).

 *  The initial membership of the Mathematical Neuroscience subgroup are
    all SMB members who have supported the petition. If you belong to this
    group you don't have to do anything.
 *  SMB, ESMTB or JSMB members who would like to join SMB MathNeuro are
    asked to fill out the information in the google form linked below.
    (SMB, SMB-ESMTB and SMB-JSMB members enjoy reduced registration costs
    to the SMB annual meeting.)
 *  Non SMB, ESMTB or JSMB members are encouraged to join the SMB,or SMB-ESMTB
    or SMB-JSMB and become MathNeuro members.


Best wishes
Horacio G. Rotstein and Stephen Coombes (Chair & Alternate Chair)


From: Robert Smith? <>
Date: Wed, Jan 18, 2017 at 10:45 AM
Subject: CfP: SummerSim Bio-Medical and Population Modeling Track

Call for Papers for SummerSim Bio-Medical and Population Modeling Track

The Bio-Medical and Population Modeling (BMPM) track in SummerSim is seeking
submissions for papers and presentations. Topics include computational
work related to biology, healthcare, surgery, dentistry, mental health,
pharmaceuticals, health economics, medical education or bioinformatics.

Conference dates: July 9-12, 2017
Location: Seattle, Washington, USA

Conference web site:

IMAG wiki MSM event link:

Paper submission Deadline: February 20, 2017

Paper Submission Link:

The BMPM track will practice public non-blind peer review. Short papers
are encouraged.

For additional information see the full call for papers for the BMPM track:

Please direct questions by email to: Jacob Barhak <>
or Robert Smith? <>


From: Sharon Crook <>
Date: Fri, Jan 20, 2017 at 9:13 PM
Subject: CfA: CNS*2017 Antwerp, Belgium

CNS*2017 Call for Abstracts

Organization for Computational Neurosciences (OCNS)
26th Annual Meeting

Antwerp, Belgium
July 15-20, 2017

The main meeting (July 16-18) will be preceded by a day of tutorials (July
15) and followed by two days of workshops (July 19-20).

Invited Keynote Speakers:

Erik De Schutter, Okinawa Institute of Science and Technology, Japan
Panayiota Poirazi, IMBB-Forth, Greece
Karl Friston, University College London, UK
Sue Denham, University of Plymouth, UK

Registration and abstract submission are open.
Abstract submission deadline: March 5th, 2017

Workshop proposals are now being accepted.

Note that one of the authors has to register as sponsoring author for the
main meeting before abstract submission is possible. In case the abstract
is not accepted for presentation, the registration fee will be refunded.

For up-to-date conference information, please visit:


From: Catherine Crawley <>
Date: Mon, Jan 23, 2017 at 1:57 PM
Subject: CfA: Pan-microbial Trait Ecology, a NIMBioS Investigative Workshop

The National Institute for Mathematical and Biological Synthesis (NIMBioS)
is now accepting applications for its Investigative Workshop, "Pan-microbial
Trait Ecology," to be held June 14-16, 2017, at NIMBioS.

Objectives: This workshop aims to lay the groundwork for a mechanistic
trait-based framework for different microbial taxa by combining several
fundamental fields, from genomics and metabolic modeling to community ecology
and ecosystem modeling. We will identify key traits that can be used in
community and ecosystem models and outline ways to derive such traits from
known microbial genomes and metabolic networks. We will explore several
biological and computational challenges within this topic, such as linking
cellular metabolism to phenotypic traits, developing multidimensional models,
reducing model complexity, modeling trait evolution at different levels
and expanding metabolic models to the level of microbial communities. The
workshop will bring together a highly interdisciplinary and diverse group
of researchers at different stages of their careers, which will enable
multiple intellectual synergies. The workshop output should stimulate the
broad participation of applied mathematicians, computational microbial
biologists, community ecologists and ecosystem scientists in developing
trait-based frameworks further.

Location: NIMBioS at the University of Tennessee, Knoxville;

Co-Organizers: Elena Litchman, Michigan State Univ.; Christine Hawkes,
Univ. of Texas, Austin; and Chris Klausmeier, Michigan State Univ.

For more information about the workshop and a link to the online application
form, go to

Participation in NIMBioS workshops is by application only. Individuals with
a strong interest in the topic are encouraged to apply, and successful
applicants will be notified within two weeks after the application
deadline. If needed, financial support for travel, meals, and lodging is
available for workshop attendees.

Application deadline: March 26, 2017

The National Institute for Mathematical and Biological Synthesis (NIMBioS)
( brings together researchers from around the world
to collaborate across disciplinary boundaries to investigate solutions to
basic and applied problems in the life sciences. NIMBioS is sponsored by
the National Science Foundation, with additional support from The University
of Tennessee, Knoxville.


From: Kit Yates <>
Date: Thu, Jan 12, 2017 at 7:20 AM
Subject: Developing Efficient Methodologies for Modelling Stochastic ...

We've now opened registration for the conference:
Developing efficient methodologies for modelling stochastic dynamical
systems in biology

Conference date: 10 April 2017
Time: 9:30 . 18.00, followed by conference dinner
Venue: University of Bath



From: Gabriel Kreiman <>
Date: Fri, Jan 20, 2017 at 5:28 PM
Subject: Brains, Minds and Machines Summer Course, MBL Woods Hole

Brains, Minds and Machines
A Special Topics Course at MBL Woods Hole, MA
Directors: Gabriel Kreiman, Children's Hospital, Harvard Medical School; and
Tomaso Poggio, Massachusetts Institute of Technology
Course Dates: Aug. 13 - Sept. 3, 2017
***Application Deadline: March 14, 2017***


From: Catherine Crawley <>
Date: Fri, Jan 20, 2017 at 10:25 AM
Subject: NIMBioS/NISER Webinar: Program Evaluation 101

Ever wonder how to create a big picture of your program to engage participants
and funding agencies? Do you want to know how to define program goals and
outcomes to leverage impact and move toward sustainability? Then join us for
a free one-hour webinar given by experts in the field of program evaluation
at 2 p.m. EST, Feb. 9, 2017.

The webinar is the first activity in the National Institute for Mathematical
and Biological Synthesis (NIMBioS) and the National Institute for STEM
Education and Research (NISER) series of STEM program evaluation events
for the NSF INCLUDES projects.

The webinar will introduce STEM educators to key concepts and vocabulary
concerning evaluation methods. The target audiences for the webinar are STEM
educators who have little or no prior experience with program evaluation,
including PIs of NSF INCLUDES projects. The webinar is sponsored by the
National Science Foundation through NSF Award #HRD-1650390.

To register, visit

For more information about the webinar and about registering to participate
virtually in our NSF INCLUDES Conference on Multi-Scale Evaluation in STEM
Education on Feb. 22 (tutorial) and Feb. 23-24 (conference), visit

For more information, contact Sondra LoRe at


From: GRLMC <>
Date: Fri, Jan 20, 2017 at 2:20 PM
Subject: Conference on Algorithms for Computational Biology, June 5-7, Aveiro


AlCoB 2017
Aveiro, Portugal
June 5-7, 2017

Organized by:

Center for Research & Development in Mathematics and Applications (CIDMA)
Institute of Electronics and Informatics Engineering of Aveiro (IEETA)
University of Aveiro
Research Group on Mathematical Linguistics (GRLMC)
Rovira i Virgili University


From: Bernie Daigle <>
Date: Wed, Jan 18, 2017 at 6:13 PM
Subject: MS/PhD Position: Bioinformatics and Computational Systems Biology

Supervisor: Dr. Bernie Daigle, Jr., Assistant Professor, Departments of
Biological Sciences and Computer Science

Experimental biologists are generating data at an unprecedented rate.
Unfortunately, biological insight has not kept pace with this deluge of
data. The goal of my lab is to improve the inference of biological meaning
from the wealth of experimental data collected from single cells to whole
organisms. To do so, we develop sophisticated statistical and computational
tools that enable integrated analyses of noisy, heterogeneous datasets.

Assistantships are available for students interested in pursuing a Master's
or Ph.D. in bioinformatics and/or computational biology. In the first
area, active research projects in my lab involve mining publicly available
biological datasets to facilitate the characterization and classification
of human disease. Specifically, we are interested in developing more
effective supervised and unsupervised machine learning approaches for
high-throughput data, using models such as Bayesian networks and artificial
neural networks. In the second area, our research involves developing
computational methods for inferring the underlying structure and behavior of
biological systems. Recent work by our lab in this area includes combining
stochastic simulation and optimization techniques to characterize promoter
architecture from single-cell gene expression data. More information can
be found at

The successful candidate should be highly motivated and have some computer
programming experience (R, MATLAB, Perl, Python, C, or C++). Prior
research experience in bioinformatics and/or computational biology is
desirable. Details about admission and degree requirements can be found
at (MS, Bioinformatics)
and (MS/PhD, Biological Sciences).
Applicants must apply to both The University of Memphis Graduate School
and the corresponding graduate program. To ensure full consideration,
applications should be completed by February 15. Accepted students will be
supported through a graduate assistantship.

If interested, please contact Dr. Daigle ( for further


From: Kisdi, Eva <>
Date: Tue, Jan 24, 2017 at 9:58 AM
Subject: PhD Student Position, Mathematical Ecology & Evolution, Helsinki

PhD student position in mathematical ecology and evolution, Helsinki, Finland

The Biomathematics Group of the Department of Mathematics and Statistics,
University of Helsinki, Finland, is looking for a highly motivated PhD
student to join our research in mathematical ecology and evolution. We focus
on population dynamics, including structured populations and metapopulations,
and adaptive dynamics, with applications such as the evolution of dispersal,
the evolution of pathogens, and more.

The candidate should have an MSc in mathematics (preferred) or graduate with
this degree by June 2017, and have a background in mathematical modelling
as well as interest in ecology/evolution. The detailed research program
is negotiable within the profile of our group. The graduate studies will
be supervised by Prof. Mats Gyllenberg, with possible co-supervision
by Stefan Geritz or Eva Kisdi. Salary and social benefits according to
the standard Finnish University Salary System. For more information,
see (Biomathematics Group) and (Department of Mathematics) or contact
Eva Kisdi at

Applications including a CV, the list of publications (if any), a letter of
motivation, the extract from the register of undergraduate grades, and two
reference addresses are to be sent in one pdf file to
with cc to The deadline for applications
is 15 March 2017. Please write "Application for PhD student position in
biomathematics" in the subject line.


From: Catherine Crawley <>
Date: Wed, Jan 18, 2017 at 10:03 AM
Subject: CfA: Postdoctoral Fellowship in Computational Systems Biology, NIMBioS

The National Institute for Mathematical and Biological Synthesis (NIMBioS)
and Department of Biochemistry & Cellular and Molecular Biology at the
University of Tennessee, Knoxville, are currently accepting applications for a
three-year postdoctoral fellowship in computational biology with an interest
in using systems approaches to understand complex biological processes in
cell biology, cancer biology, immunology or developmental biology. While
the applicant must propose an independent research project as part of the
application, he/she will be expected to work closely with Dr. Tian Hong,
Department of Biochemistry & Cellular and Molecular Biology.

Support: annual stipend of $51,000 and full University of Tennessee employee
fringe benefits.

Deadline: Applications will be considered beginning April 2, 2017, continuing
until the position is filled. Letters of recommendation should be submitted
at the time of application.

How to apply: For more detail on the position and application guidelines,

For more information, contact NIMBioS Associate Director Dr. Brian O'Meara
( or Dr. Tian Hong, Department of Biochemistry & Cellular
and Molecular Biology (


From: Morten Gram Pedersen <>
Date: Wed, Jan 18, 2017 at 9:22 AM
Subject: Postdoc, Modelling Control of Exocytosis, University of Padua

A postdoc position in the Bioengineering group at the University of Padua
is available from March 1, 2017, or as soon as possible thereafter. The
postdoctoral fellow will work on mathematical and/or statistical modeling
of exocytosis.

The research project will focus on how Ca2+ channel dynamics and clustering
interact with electrical activity to control exocytosis. This will involve
stochastic and spatiotemporal simulations of Ca2+ channels, calcium dynamics
and exocytosis using computational and theoretical tools, applied to existing
and new mathematical models

For further information and to express interest please contact Dr. Morten
Gram Pedersen ( -


From: JoAnn Takabayashi <>
Date: Wed, Jan 18, 2017 at 3:05 PM
Subject: Postdoctoral Researcher, Oregon Health & Science University

Position Type:
Postdoctoral Researcher

Computational Biology Program

Position Description:
Do you think that biology needs better models and better software tools? Do
you want to bridge the low-throughput detailed biological information with
high throughput system scale profiling experiments? Are you interested
in computational approaches to precision medicine? If your answer is yes,
we might have a great position for you!

We are looking for postdoctoral researchers who are passionate about
making a positive impact and have demonstrated creative programming skills,
preferably in an open source setting. Our goal is to build on our existing
work in pathway informatics and cancer genomics to find creative ways to
generate very large models of cellular processes and apply them to understand
and cure cancer. We are at a very exciting junction with existing and new
collaborations with Intel, Dana Farber, Harvard Medical School and University
of Toronto.

Working in a dynamic, software development focused team, you will build tools,
algorithms and services for creating and using detailed, system scale pathway
information with specific focus on Cancer Biology. Previous experience in
-omic data, pathways and networks, real time collaborative platforms, natural
language processing and data visualization will be evaluated positively. Cross
training or experience in biology is highly desirable. Previous open source
software development experience is also a major plus.

Required Qualifications:
- Ph.D. in relevant field
- Demonstrated open source software development experience
- Prior work in algorithms development

Preferred Qualifications:
- Extensive OSS development record

Employer Name: 
Oregon Health & Science University
School of Medicine, Computational Biology Program

Position Location:
Portland, Oregon, US

Application Deadline Date:

Questions please email:

To apply:

Reference: IRC51409
CV/Resume, cover letter and list of 3 references.


From: jsluka old <>
Date: Thu, Jan 19, 2017 at 11:32 AM
Subject: Postdoc, Computational Biology Biocomplexity Institute, Indiana U

Postdoctoral Fellow
Biocomplexity Institute
School of Informatics and Computing (SOIC)
Indiana University, Bloomington

The Biocomplexity Institute ( is seeking
Postdoctoral Fellows to participate in computational biology research
on embryogenesis, vascular, liver, kidney, eye, cancer and toxicology
modeling. These positions offer candidates the opportunity to work in a
multidisciplinary environment that includes engineers, modelers, physicists,
chemists, in vitro and in vivo biologists as well as clinicians working
at the interface between computation and real-world biological and medical

We have particular need for people to continue funded research on the effects
of toxins on the liver and in cancer modeling. Successful applicants may
have the opportunity to conduct experimental research related to their
simulations. The position will offer unique opportunities to collaborate
on funded as well as new research projects. Computational areas of
interest include systems biology, multicell models of tissues and organs
("virtual tissues"), biomechanics, fluid dynamics and scientific software
development. The candidate will develop models of both human and animal
development, homeostasis and disease.

Ideal Start Date for position: On or after March 1, 2017

For more information or to apply please visit


From: Sarthok Sircar <>
Date: Fri, Jan 20, 2017 at 2:30 AM
Subject: Tenure-track Positions: Center for Applied Mathematics, IIIT, India

Tenure Track/Tenured Positions: Centre for Applied Mathematics at IIIT-Delhi,

Job title: Professor (Open rank) - Center for Applied Mathematics
Company name: Indraprastha Institute of Information Technology, Delhi
Location: New Delhi, India, 110020

Indraprastha Institute of Information Technology, Delhi (IIIT-Delhi) has
emerged as one of the most promising, fully autonomous institution in IT
and allied sciences in India today. IIIT-Delhi has currently 60 faculty
members all with PhDs from top universities around the world. It has a
strong focus on rigorous research and has a robust doctoral program

The Institute is in the process of establishing the Center for Applied
Mathematics and aims to recruit tenure-track/tenured faculty at all levels
in Applied Mathematics with two broad goals:

1) Have a world-class research program in the areas of Mathematics allied
to Computer Science, Electrical Engineering and Computational Biology.

2) Engage actively with industrial partners in collaborative research.

All faculty members are expected to pursue research leading to publications
in journals of repute and high impact and engage in sponsored projects and
collaborations. Strong support is provided for research and the teaching
load is light.

The institute has the best compensation in academia in India. All regular
faculty will be provided on-campus or leased accommodation. Other benefits
include initiation research grant, travel support, professional development
fund and personal benefits such as health insurance, LTC, contribution
to pension plan. More details regarding the Institute and the application
process are available on To
apply please submit your application (CV, research and teaching statement
and names of at least three reference) at


Subject: SMBnet Reminders

To subscribe to the SMB Digest please point your browser at
and complete the subscription information.  Alternatively, if you prefer
to simply receive notice when the next issue is available, send mail to  with  "subscribe SMBnet Your Name"
in the body of the mail (omit the quotes and include your name).
After you subscribe, you will receive a greeting with additional information.

Submissions to appear in the SMB Digest should be sent to

Items of interest to the mathematical biology community may be submitted
for inclusion in the SMBnet archive.  See instructions at

The SMB Digest is also available on the SMB Home Page at

The contents of this publication may be reproduced in whole or in part with

                                    Manage Subscription