SMB Digest April 1, 2015 Volume 15 Issue 13
ISSN 1086-6566
Editor: Wandi Ding ding.smb.digest(at)gmail(dot)com
Note:
Information about the Society for Mathematical Biology, including an
application for membership, may be found in the SMB Home Page,
http://www.smb.org/.
Access the Bulletin of Mathematical Biology, the official journal
of SMB, at
http://www.springer.com/11538.
Inquiries about membership or BMB fulfillment should be sent to
membership(at)smb(dot)org.
Issue's Topics:
Mentoring at the 2015 SMB Annual Meeting
Conf: Numerical Combustion, France, April 19-22
Conf: Algebraic and Combinatorial Approaches..., CT, May 22-24
Workshop: Mathematical Methods in Systems..., Ireland, June 15-18
Workshop: Image Processing Techniques and..., UK, July 6-8
Workshop: Post-grad ASI in Mathematical and..., UK, July 13-24
Conf: Models in Population Dynamics..., Brazil, August 24-28
Conf: Bio-inspired Information and..., NY, December 3-5
PhD Scholarship: Mathematical Modeling..., U of New South Wales
Postdoc Position: Synthetic Biology, Wageningen U
Postdoc Position: Whole-cell Modeling, Mount Sinai (NYC)
SMBnet Reminders
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From: Caroline Bampfylde <
caroline.bampfylde@gov.ab.ca>
Date: Wed, Mar 25, 2015 at 12:10 PM
Subject: Mentoring at the 2015 SMB Annual Meeting
Applications are being accepted for mentors and mentees to participate in
the mentoring programme for junior scientists attending the 2015 Annual SMB
conference in Atlanta (June 30 ? July 3).
Following the mentoring program at previous annual meetings, we are again
offering a mentoring program for the benefit of junior scientists attending
the 2015 Annual Meeting. The goal of this program is two-fold:
* to optimize the educational and professional experience of mentees
attending the conference;
* to assist the mentees' socialization into the field of mathematical
biology.
Participants may register as a mentor or mentee or both. The deadline for
applications is June 1, 2015. To register email:
mentoring@biomath.co.uk with the following information in the main text of your email message:
- Name, career stage, and affiliation (department and institution);
- A brief description of your research interests (one paragraph will
suffice);
- Mentees: What are your personal goals for participation in the mentoring
program?
- Which conference themes does your research falls under (may be more than
one): Disease, Medicine, Public Health, Systems Biology, other (please
describe)
- Mentees: Do you have any special requests? For example, perhaps you would
like a mentor who speaks a certain language, lives in a certain
geographical region, has a dual-career family, etc. Or perhaps you know of
a senior scientist coming to the conference whom you would like to have as
a mentor (if that person were available).
- Mentors: Do you have any special expertise that may be of benefit to
mentees? Please include with your information whether you are willing to
interact with mentees in a language other than English, whether you can
advise on dual-career issues, etc.
---------------------------------------------------------
From: ICNC2015 <
nc15@ecp.fr>
Date: Wed, Apr 1, 2015 at 7:18 AM
Subject: Conf: Numerical Combustion, France, April 19-22
Fifteenth International Conference on Numerical Combustion to be held in
Avignon (France), April 19-22, 2015 is now coming soon. An updated version
of the program is now available on the conference website
(
http://www.nc15.ecp.fr/nc15/program).
Instructions to authors may also be found at
http://www.nc15.ecp.fr/nc15/participate/Instructions.
The Palais des Papes is a famous old building very easy to find in
Avignon. However the Convention Center entrance is not very visible when
arriving on the place in the front of the palace. See information at
http://www.nc15.ecp.fr/nc15/travel/access.
If you wish to attend the conference, but have not registered yet, note
that regular registration fees are available until April 15th, 2015 (see
http://www.nc15.ecp.fr/nc15/participate/registration).
---------------------------------------------------------------------
From: Elena Dimitrova <
edimit@clemson.edu>
Date: Mon, Mar 30, 2015 at 12:57 PM
Subject: Conf: Algebraic and Combinatorial Approaches..., CT, May 22-24
The 2015 Algebraic and Combinatorial Approaches in Systems Biology
Conference (ACSB 2015) will be held in Farmington, CT from May 22-24. The
conference will focus on application of methods in computational algebra
and discrete mathematics to diverse aspects of modeling of molecular
networks, in particular gene regulatory networks, with emphasis on discrete
modeling approaches and combinatorial approaches for the analysis of
networks.
The conference is being hosted by the Center for Quantitative Medicine
within the University of Connecticut Health and will be held at the UConn
Health Cell and Genome Sciences Building in Farmington, CT.
Pending final approval from the National Sciences Foundation (NSF), we
will be able to provide partial support for attendees with a particular
emphasis on junior participants (students, postdocs, and young faculty).
For more information including deadlines, registration form, and abstract
submission form see
http://acsb2015.cqm.uchc.edu ---------------------------------------------------------------------
From: Eugene Kashdan <
ekashdan@maths.ucd.ie>
Date: Tue, Mar 31, 2015 at 5:27 PM
Subject: Workshop: Mathematical Methods in Systems..., Ireland, June 15-18
The registration and the abstract submission is now open for the 3rd
international workshop "Mathematical Methods in Systems Biology",
University College Dublin, Ireland, June 15-18, 2015.
The goal of the workshop is to bring together applied mathematicians,
statisticians and researchers working in various fields of systems biology
in order to exchange ideas and initiate collaborations motivated by
problems arising in fields such as: cancer modelling, detection and
treatment, epidemiology and infectious diseases, computer-assisted
diagnosis, medical imaging and others.
The workshop is a follow-up to two successful MMSB meetings (Tel Aviv,
2010 and Cape Town, 2012). It will include plenary talks, a small number
of parallel sessions, a poster session and open discussions aimed at
connecting clinicians and system biologists in order to initiate long-term
collaborative projects. The workshop website is
http://mathsci.ucd.ie/mmsb The email for enquiries is
mmsb@maths.ucd.ie---------------------------------------------------------------------
From: Chen, Ke <
K.Chen@liverpool.ac.uk>
Date: Wed, Mar 25, 2015 at 10:19 AM
Subject: Workshop: Image Processing Techniques and..., UK, July 6-8
The 3rd International Workshop on Image Processing Techniques and
Applications, incorporating Mathematical Imaging with Biomedical
Applications, will be held at Liverpool during July 6-8, 2015.
http://www.liv.ac.uk/cmit/workshop_15/ Though there is no registration fee for this EPSRC funded event, places
are limited due to room capacity and seating so early registration is
encouraged.
---------------------------------------------------------------------
From: Emily Anderson <
programmes@newton.ac.uk>
Date: Mon, Mar 30, 2015 at 7:02 AM
Subject: Workshop: Post-grad ASI in Mathematical and..., UK, July 13-24
Event name: Post-grad ASI in Mathematical and Physical Sciences: Modelling,
Numerical Analysis and Applications (CGPW01), Date: 13 ? 24 July 2015.
Location: Isaac Newton Institute for Mathematical Sciences, University of
Cambridge, UK.
Description:
Cellular migration depicts one of the most vital processes for complex life
formation and is a major origin for devastating diseases upon malfunction.
While hundreds of different migratory relevant molecules have been
identified over the past decades, underlying mechanisms for cell migration
including cell morphology and protein complex formation are only
insufficiently understood and rarely rendered into mathematical models
using theoretical as well as numerical methods. In order to accomplish
these important scientific needs we will develop new 2D and 3D mathematical
models for cell migration driven by experimental observations. At the same
time, theoretical predictions can result in the development of completely
new theories allowing new experimental approaches as well as hypothetical
testing and validation in experimental laboratories. In order to achieve
some of these goals, this two-week workshop aims to bring together
internationally renowned mathematicians, theoretical and experimental
physicists as well as biologists to deliver topical and in-depth cross-
interdisciplinary lectures fundamental to understanding of underlying the
spatiotemporal processes associated with cell migration and pattern
formation as well as the potential of modelling-based approaches. Keynote
speakers will include world-leading experts in modeling and numerical
methods and the most relevant aspects in cell migration and pattern
formation from diverse areas such as mathematics, theoretical and
experimental physics, and biology. All aspects will be presented by
theoreticians and experimentalists and will facilitate deep discussions
among participants in order to evolve and develop key research questions
solvable through modeling and simulations in a joint effort. Research
groups will be developed to tackle specific research questions designed
and presented through the lectures and seminars and these will form the
basis for short-, medium- and long-term research collaborations during
the 6 month period. The workshop will take place at the Isaac Newton
Institute, Cambridge, UK.
Further details and applications:
http://www.newton.ac.uk/event/cgpw01 Deadline for applications: 8 April 2015
---------------------------------------------------------------------
From: Petrovskiy, Sergei (Prof.) <
sp237@leicester.ac.uk>
Date: Fri, Mar 27, 2015 at 5:12 AM
Subject: Conf: Models in Population Dynamics..., Brazil, August 24-28
Models in Population Dynamics & Ecology 2015: E^3 ? bringing together
Ecology, Epidemiology and Evolution, Niteroi, Rio de Janeiro, August 24-28,
2015.
REGISTRATION IS NOW OPEN -- PLEASE VISIT THE CONFERENCE WEBSITE AT
http://www.mpde15.uff.br/The 9th MPDE conference will address a broad variety of problems across
ecological sciences and is expected to explore the processes and mechanisms
ranging from the micro-scale of individual movement to the macro-scale of
populations and communities. This year, a special focus will be on the
interplay between ecology, epidemiology and evolution. MPDE'15 is also
expected to address similarities between the modelling techniques
traditionally applied in ecology and those used in other life sciences
with the purpose to enhance interdisciplinary approaches and to stimulate
further advances in mathematical ecology and population dynamics.
The scope of the conference is outlined by (although not necessarily
restricted to) the following topics:
* population dynamics and ecological complexity
* individual animal movement and dispersal
* biological invasions and spread of epidemics
* epidemiology and eco-epidemiology
* evolutionary ecology and evolution
* collective dynamics and ecological pattern formation
The program will consist of plenary (invited) talks, mini-symposiums,
contributed talks and a poster session. The talks are expected to be mostly
grouped around the above subject areas. However, we will be ready and
willing to consider any submission of a potentially high scientific merit
which does not exactly fall into the above list.
Organizers: Max Souza (Niteroi, Brazil) and Sergei Petrovskii
(Leicester, UK)
Confirmed plenary speakers:
Stephen Cantrell (Miami, USA)
Ottar Bjornstad (Penn State, USA)
Marie Doumic-Jauffret (INRIA, France)
Vincent Jansen (Royal Holloway, UK)
Johan van de Koppel (NIOZ, The Netherlands)
Mark Lewis (Edmonton, Canada)
Eduardo Massad (Sao Paulo, Brazil)
Ran Nathan (Jerusalem, Israel)
Sergei Petrovskii (Leicester, UK)
Gauthier Sallet (INRIA, France)
Jonathan Sherratt (Edinburgh, UK)
Brian Skyrms (Irvine, USA)
Claudio Struchiner (Rio de Janeiro, Brazil)
Ezio Venturino (Turin, Italy)
Further information including important deadlines and the registration
forms is available from the conference website at
http://www.mpde15.uff.br/For any questions, please do not hesitate to contact the organizers
directly at
max.souza@gmail.com (Max Souza) or
sp237@le.ac.uk (Sergei Petrovskii).
---------------------------------------------------------------
From: <
pleger@ucn.cl>
Date: Tue, Mar 31, 2015 at 8:01 AM
Subject: Conf: Bio-inspired Information and..., NY, December 3-5
CFP: 9th International Conference on Bio-inspired Information and
Communications Technologies (BICT 2015, formerly BIONETICS), December 3
(Thu) - December 5, 2015 (Sat), New York City, NY, USA
http://www.bionetics.org/Paper submission deadline extended: August 3, 2015
Sponsored by European Alliance for Innovation (EAI) and Department of
Biomedical Engineering at the Columbia University School of Engineering
and Applied Science.
In-corporation with ACM (Pending)
BICT 2015 aims to provide a world-leading and multidisciplinary venue for
researchers and practitioners in diverse disciplines that seek the
understanding of key principles, processes and mechanisms in biological
systems and leverage those understandings to develop novel information and
communications technologies (ICT).
Application domains include, but not limited to, autonomic computing,
bioinformatics, biomedical engineering, computer networks, computer vision,
data mining, e-health, green computing and networking, grid/cloud
computing, intelligent agents, mechanical engineering, nanoscale/molecular
computing and communication, optimization, pervasive computing, robotics,
security, social networks, software engineering and systems engineering.
IMPORTANT DATES:
Regular paper submission due: August 3
Short and poster/demo paper submission due: September 22
Notification for regular papers: September 21
Notification for short and poster/demo papers: October 1
Camera ready due: October 15
CO-LOCATED WORKSHOPS:
* Bioinformatics 2015
* Brain-Inspired Information Communication Technologies (BIICT)
* Computational Models of the Visual Cortex (CMVC): Hierarchies, Layers,
Sparsity, Saliency and Attention
* Int'l Workshop on Electro-Chemical Signaling in Neuron Organelles (ESNO)
* The First Int'l Workshop on Combining Machine Learning and Search-Based
Software Engineering (MLSBSE)
* Int'l Workshop on Physarum Transport Networks (PhysNet)
PAPER SUBMISSION:
Authors are invited to submit regular papers (up to 8 pages each), short
papers (up to 4 pages each) or poster/demo papers (up to 2 pages each) in
ACM's paper template. Up to two extra pages are allowed for each paper
with extra page charges. See
http://bionetics.org/2015/show/initial-submission for more details.
---------------------------------------------------------------
From: Miles Davenport <
z9801119@unsw.edu.au>
Date: Tue, Mar 31, 2015 at 12:38 AM
Subject: PhD Scholarship: Mathematical Modeling..., U of New South Wales
PhD scholarship: mathematical modeling in infection and immunity
The Complex Systems in Biology Group at the University of New South Wales
is looking for talented students to join their team in Sydney, Australia,
investigating immunity and vaccination for chronic infectious disease. The
group is an interdisciplinary team including immunologists, applied
mathematicians, physicists, chemists, engineers and computer scientists.
The team uses mathematical modeling, statistical analysis, and computer
simulation to understand immunity from infection. The scope of studies
ranges from modeling immune kinetics in vivo, analysis of genetic evolution
in HIV, to analysis of cohort data on malaria infection in the field. The
group has a high publication output and a strong history in successful
interdisciplinary training. It is an ideal venue for students with a
quantitative background (mathematics / physics / statistics) aiming to
diversify their experiences in mathematical biology, or considering a
career change from mathematics / physics or other disciplines to work in
mathematical biology.
Applicants are sought for International student scholarships for PhD
studies. These scholarships cover tuition and living expenses. PhD
studies generally last 3.5 years. More details are at:
http://research.unsw.edu.au/international-research-candidate-scholarshipsThe scholarships are highly competitive, and a high GPA (first class
honours or equivalent. High ranking in class) +/- publications are required.
Interested students should forward a CV and outline of interests to
Professor Miles Davenport (
m.davenport@unsw.edu.au).
Applications are due 24 August 2015 for students to commence in early
2016, but students should make contact as soon as possible.
For more details of research interests see:
http://med.unsw.edu.au/people/professor-miles-davenportThe University has a strong reputation for scholarship
http://www.topuniversities.com/universities/university-new-south-wales/undergradand is located around 15 minutes by bus from central Sydney, and 15
minutes walk from the popular Coogee beach.
---------------------------------------------------------------
From: Pinkster, Carolien <
carolien.pinkster@wur.nl>
Date: Thu, Mar 26, 2015 at 5:02 AM
Subject: Postdoc Position: Synthetic Biology, Wageningen U
Postdoc position in Synthetic Biology from Wageningen University.
All the info can be found at:
http://www.wageningenur.nl/en/Jobs/Vacancies/Show/Postdoc-in-Synthetic-Biology.htm---------------------------------------------------------------
From: Jonathan Karr <
jonrkarr@gmail.com>
Date: Tue, Mar 31, 2015 at 1:19 PM
Subject: Postdoc Position: Whole-cell Modeling, Mount Sinai (NYC)
Postdoctoral Fellow, Senior Scientist, or Software Engineer in whole-cell
modeling.
The Karr lab in the Institute for Genomics & Multiscale Biology at the
Mount Sinai School of Medicine is seeking talented, ambitious individuals
to develop cutting-edge dynamical models of human and bacterial cells.
Despite the explosion of experimental data, we do not comprehensively
understand how phenotype arises from genotype. Our approach is to develop
computational models which predict how behavior emerges from the molecular
level by integrating diverse data into a single model. Our goal is to use
models to make medicine more precise and personalized by predicting disease
progression and drug responses. We are also using our models to engineer
bacteria. Our research is highly interdisciplinary involving computational
modeling, software engineering, data visualization and curation. We have
close collaborations with several experimental groups to build and test
our models.
Responsibilities. The candidate will be responsible for developing human
and bacterial whole-cell models for precision cancer medicine and synthetic
biology. This will include expanding the scope of whole-cell models,
incorporating new sources of high-throughput genomic data, and improving
the accuracy of whole-cell models. The candidate will work closely with
experimental cancer collaborators at Mount Sinai, as well as with Luis
Serrano's laboratory at the Center for Regulatory Genomics in Barcelona,
Spain.
Desired skills/experience. The ideal candidate has the following skills.
Applicants with deep experience in related fields are also encouraged to
apply.
- Deep experience in dynamical and genome-scale modeling, software
engineering, data visualization, and databases;
- Strong knowledge of biology, physics, mathematics, and computation;
- Several years experience in computational systems biology is a plus;
- Excellent object-oriented programming skills in Python, MATLAB, and
JavaScript;
- Ability to learn new skills and concepts;
- Excellent oral and written communication skills; and
- Abilities to work independently and within a team effort.
Compensation & Benefits. Compensation will be commensurate with experience
and education. All employees are eligible for medical, dental, and health
insurance. Subsidized housing is available for postdoctoral fellows.
How to apply. Please send a cover letter indicating your research and
career goals, a CV, and 2-3 letters of reference to Jonathan Karr
(
karr@mssm.edu).
More information. Please visit our website (
http://research.mssm.edu/karr/join.html)
or contact Jonathan Karr (
karr@mssm.edu).
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Subject: SMBnet Reminders
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The contents of this publication may be reproduced in whole or in part with
attribution.
End of SMB Digest
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