Subject: SMB Digest v12i13
SMB Digest March 28, 2012 Volume 12 Issue 13
ISSN 1086-6566
Editor: Amina Eladdadi eladdada(at)strose(dot)edu
Note:
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Issue's Topics:
Conference: New Statistical Methods... May 11, Iowa State U. IA
Symposium: Bio-Math-call for papers CMMSE12, July 2-5, Spain
Symposium: on Solid and Physical Modeling, October 29-31, France
Workshop: on Hybrid Systems and Biology, September 3, UK
Postdoc: (1) Infectious Disease Dynamics Modeller, U. of Cambridge
Postdoc: (2) Infectious Disease Dynamics Modeller, U. of Cambridge
SMBnet Reminders
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Date: Thu, Mar 22, 2012 at 1:12 PM
Subject: Conference: New Statistical Methods for Next Generation
Sequencing Data Analysis, May 11, Iowa State U. IA
Registration and abstract submission are now open for the "Conference
on New Statistical Methods for Next Generation Sequencing Data
Analysis" to be held at Iowa State University in Ames, IA on May 11,
2012. The conference will provide a platform to discuss the latest
statistical research in next generation sequencing data analysis and
promote collaborations among researchers with interest and expertise in
this area. Co-sponsors include the American Statistical Association,
the Institute of Mathematical Statistics, and the Department of
Statistics, the Office of Biotechnology, and the Laurence H. Baker
Endowment at Iowa State University. Please visit
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Date: Thu, Mar 22, 2012 at 9:54 AM
Subject: Call for papers CMMSE12
As we have done since 2008, we plan to organize a special
Bio-Mathematics session at the 12th International Conference
Computational and Mathematical Methods in Science and Engineering
2012, to be held in La Manga, Spain, next July 2-5.
In this session we invite contributions in every field in mathematics
applied to biology and medicine, with particular emphasis on, but not
limited to, population models and epidemiology.
Contributions in the realm of mathematical modeling and computer
simulations are welcome, for the understanding of every possible
interesting phenomenon in real life sciences.
We hope you can help us to make another successful event, as it has
been the case in the past five years. Deadline for extended abstracts
(TO BE SENT TO US, THE ORGANIZERS OF THE SPECIAL SESSION) is MAY 1ST,
to allow for the reviewing process.
If interested, please contact the organizers of the session.
Further information on the conference is at the website
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Date: Tue, Mar 27, 2012 at 3:23 AM
Subject: Symposium: on Solid and Physical Modeling, October 29-31,
France
SPM'2012: Symposium on Solid and Physical Modeling 2012 October 29-31,
The Symposium on Solid and Physical Modeling 2012 (SPM'2012), in
cooperation with SIAM and in cooperation with ACM SIGGRAPH (pending),
will be held in October 29-31, 2012, at the University of Burgundy (la
Bourgogne), Dijon, France.
The focus of the conference is on the mathematical and computational
issues that arise in generating, analyzing, and processing geometric
information in applications such as: mechanical design, process
planning, manufacturing, bio-medical, games, animation, geology, and
virtual reality.
The proceedings of SPM2012, including full papers and short papers,
will be published as a special issue of the Computer Aided Design
journal (Elsevier).
Proceedings papers should present previously unpublished, original
results that are not simultaneously submitted elsewhere. All papers
will be rigorously peer-reviewed by members of the international
program committee. SPM'2012 proceedings, including full papers and
short papers, will be published as a journal special issue in Computer
Aided Design, the prestigious journal from Elsevier (5-year impact
factor= 2.37).
Papers will be available for download during the conference from the
Elsevier Booth for those who do not subscribe to the journal.
The journal status of the proceedings requires a two-stage review
process with conditional acceptance after the first round and final
acceptance based on the revised submissions. Full-length and short
undergo the same review process.
Important Dates:
March 30., 2012: Abstracts Due
April 2, 2012: Full Paper Submissions Due
mid-May, 2012: First Review Notification
June 21, 2012: Revised Papers Due
mid-July, 2012: Second Review Notification
July 27, 2012: Final Versions
Program Co-Chairs:
Stefanie Hahmann, University of Grenoble, France
Sara McMains, UC Berkeley, USA
Conference Co-Chairs:
Dominique Michelucci, University of Burgundy, France
Sebti Foufou, Qatar University, Qatar & University of Burgundy, France
----------------------------------------------------
Date: Tue, Mar 27, 2012 at 10:10 AM
Subject: Workshop on Hybrid Systems and Biology, September 3, UK
First International Workshop on Hybrid Systems and Biology
Newcasle upon Tyne, UK, September 3, 2012
Colocated with CONCUR 2012
The goal of systems biology is to provide a system-level understanding
of biological systems by unveiling their structure, dynamics and
control methods. The intrinsic multi-scale nature of these systems,
both in space, in organization levels, and in time, makes extremely
difficult to model all of them in a uniform way, e.g. by means of
differential equations or discrete stochastic processes. Furthermore
such models are often not easily amenable to formal analysis and
simulation at the organ or even the cell level is frequently
impractical. Indeed, an important open problem is finding appropriate
computational models that scale well for both the simulation and
formal analysis of biological processes. Hybrid modeling techniques,
combining discrete and continuous processes, are gaining more and more
attention in systems biology, and they have been applied to
successfully capture the behavior of several biological complex
systems, ranging from genetic networks, biochemical reactions,
signaling pathways and cardiac tissues electrophysiology. This
workshop aims at collecting scientists working in the area of hybrid
modeling applied to systems biology, in order to discuss about current
achieved goals, current challenges and future possible developments.
Topics of interest include, but are not limited to:
* Hybrid models of biological systems (case studies of genetic,
cellular networks, models of tissues, etc.)
* Computational and mathematical analysis techniques for hybrid
systems (i.e. reachability, model checking, abstract interpretation,
bifurcation theory for hybrid dynamical systems, etc.), with
applications in Systems Biology.
* Hybrid system identification techniques (learning the model from the
experimental data)
* Efficient simulation techniques for hybrid systems.
* Hybrid modeling languages for biological systems.
* Hybrid systems coping with incomplete and uncertain information.
* Sensitivity analysis for hybrid systems.
* Behaviour-driven parameters identification for hybrid systems.
* Analysis and simulation tools.
We solicit the submission of unpublished results that address on both
theoretical and applied aspects of hybrid modeling techniques in
systems biology. The proceedings will be published in the Electronic
Proceedings in Theoretical Computer Science (EPTCS) series. A special
issue in a journal will be considered at the end of the workshop.
Paper submission Full papers should be no more than 15 pages long,
typesetted in the EPTCS-style. Electronic submissions of abstracts
and of full-length papers (in PDF format), can be done through the
online submission system:
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Date: Thu, Mar 22, 2012 at 1:18 PM
Subject: Postdoc- Non-invasive electrical imaging of the heart, INRIA
Bordeaux
There is an opportunity to apply for post doc position at INRIA
Bordeaux on the topic Non-invasive electrical imaging of the heart
Position type: Post-doctoral Fellow
Functional area: Bordeaux (Talence)
Research theme: Computation sciences for biology, medicine and the
environnement
Project: CARMEN
Application deadline: June 29, 2012
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Date: Tue, Mar 27, 2012 at 7:08 AM
Subject: Posdoc 1-Infectious Disease Dynamics Modeller, U. of Cambridge
Postdoctoral Research Associate- Infectious Disease Dynamics Modeller
Post 1-Dynamics of susceptibility and transmission of Campylobacter
jejuni in chickens.
Salary: £27,578.00 - £35,938.00 per annum
Limit of Tenure: 13 May 2014
The Department of Veterinary Medicine is recruiting two BBSRC-funded
postdoctoral research associates to develop mathematical and
statistical models for the dynamics of bacterial infections. The two
positions will work in a thriving multi-disciplinary research setting
that associates the Bacterial Infection Group and the Disease Dynamics
Unit. Both projects involve close collaboration between modellers and
experimental biologists. The modellers we seek to recruit will have
unique opportunities to contribute to the design of experiments aimed
at testing the predictions of mathematical models.
Candidates for either post should hold a PhD (or equivalent) in
disease dynamic modelling or a closely related discipline. Experience
of developing stochastic population models and use of modern
statistical methods of inference is highly desirable. The ideal
candidates will be able to work closely with experimental biologists
to develop novel theoretical and experimental methods in
parallel. Please state clearly which post you are applying for on the
application form. Applications can be made for one or both positions.
Dynamics of susceptibility and transmission of Campylobacter jejuni in
chickens.
This 22 month position is part of a two-year BBSRC grant entitled
?Experimental Infection Dynamics for Campylobacter jejuni.? This
project is led by Professor Duncan Maskell, with the main objectives
being for the post-holder to derive optimal experimental designs for
combined dose-response and transmission experiments; selection and
parameter inference for mechanistic within-flock transmission models
and the development of next-generation strain dynamic models for
Campylobacter jejuni.
For further information, please contact Dr Andrew Conlan (email:
Further particulars and CHRIS/6 application form can be downloaded
Applications should be sent for the attention of Melissa Large,
Department of Veterinary Medicine, Madingley Road, Cambridge CB3
quoting the PN reference in the subject.
Closing Date 29th April 2012
Interviews will be held on 24th May 2012.
----------------------------------------------------
Date: Tue, Mar 27, 2012 at 7:08 AM
Subject: Posdoc 2-Infectious Disease Dynamics Modeller, U. of Cambridge
Postdoctoral Research Associate ? Infectious Disease Dynamics Modeller
Post 2: The effects of vaccination and immunity on Salmonella enterica
infection dynamics in vivo.
Salary: £27,578.00 - £35,938.00 per annum
Limit of Tenure: 17 March 2014
The Department of Veterinary Medicine is recruiting two BBSRC-funded
postdoctoral research associates to develop mathematical and
statistical models for the dynamics of bacterial infections. The two
positions will work in a thriving multi-disciplinary research setting
that associates the Bacterial Infection Group and the Disease Dynamics
Unit. Both projects involve close collaboration between modellers and
experimental biologists. The modellers we seek to recruit will have
unique opportunities to contribute to the design of experiments aimed
at testing the predictions of mathematical models.
Candidates for either post should hold a PhD (or equivalent) in
disease dynamic modelling or a closely related discipline. Experience
of developing stochastic population models and use of modern
statistical methods of inference is highly desirable. The ideal
candidates will be able to work closely with experimental biologists
to develop novel theoretical and experimental methods in
parallel. Please state clearly which post you are applying for on the
application form. Applications can be made for one or both positions.
The effects of vaccination and immunity on Salmonella enterica
infection dynamics in vivo.
This position is part of a three-year BBSRC grant aiming to quantify
the effects of anti-typhoid vaccines on the dynamics of Salmonella
growth and spread in infection models. This project, led by Dr Pietro
Mastroeni, builds upon the development of Wildtype Isogenic Tagged
Strains (WITS) which, combined with fluorescence imaging, provide data
with unrivalled resolution for the fitting of detailed mechanistic
models. The modeller will work in close association with the
multi-disciplinary team to develop mathematical models, help design
experiments and analyse the data.
For further information, please contact Dr Olivier Restif (email:
Further particulars and CHRIS/6 application form can be downloaded
Applications should be sent for the attention of Melissa Large,
Department of Veterinary Medicine, Madingley Road, Cambridge CB3
quoting the PN reference in the subject.
Closing Date 29th April 2012
Interviews will be held on 24 May 2012.
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Subject: SMBnet Reminders
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