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Subject: SMB Digest v13i09
SMB Digest March 1 , 2013 Volume 13 Issue 9
ISSN 1086-6566
Editor: Amina Eladdadi eladdada(at)strose(dot)edu
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:
ToC: New Springer Books on Mathematics & Mathematical Biology
IX SEMBIOMAT-International Seminar on Biomathematics, August 7-9, Peru
Workshop: Emergence... of Infectious Diseases, June 10-11,CRM, Spain
Workshop: BioQUEST Summer 2013 Workshop, June 10-16, Emory U., GA
Summer School: From Cells to Ecosystems.., July 8?26, Brazil
Summer Internship Opportunity at Novartis Pharmaceuticals, New Jersey
MBL Computational Neuroscience Course 2013: Reg. Deadline March 6
SIAM Conference on Applications of Dynamical Systems, May 19-23, Utah
Conference: BioDynamics 2013, September 11-13, Bristol, UK
Postdoc: Research Scientist/Ecological/Epidemiological Modeller, UK
Postdoc: Research Associate Position, Georgetown University
Postdoc: Comp. Sci. Eng / Comp. Biology, Juelich
SMBnet Reminders
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From: Springer <SpringerAlerts@springeronline.com>
Date: Thu, Feb 28, 2013 at 9:44 PM
Subject: New Springer Books on Mathematics & Mathematical Biology
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NEW PRINT & EBOOKS
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>> Mathematical and Computational Biology <<
Research in Computational Molecular Biology
Book Series: Lecture Notes in Bioinformatics, Vol. 7821
Editor/s: Deng, Minghua; Jiang, Rui; Sun, Fengzhu; Zhang, Xuegong
http://www.springer.com/alert/urltracking.do?id=Lf81896Mbc7539Sa845d7bPa6e886b
To find out more about Springer eBooks for Institutions please go to
http://www.springer.com/e-content/ebooks?SGWID=0-40791-0-0-0&cm_mmc=AY-_-NBA-_-eBooks-_-0
----------------------------------------------------
From: Roxana Lopez-Cruz <roximat@gmail.com>
Date: Fri, Feb 22, 2013 at 8:23 AM
Subject: IX SEMBIOMAT-IX International Seminar on Biomathematics
CALL FOR PAPERS: SEMBIOMAT 2013
The 9th International Seminar on Biomathematics
07-09 August, 2013
Cusco, Peru
https://sites.google.com/site/sembiomat/ix-sembiomat
----------------------------------------------------
From: Andrei Korobeinikov <AKorobeinikov@crm.cat>
Date: Sat, Feb 23, 2013 at 11:45 AM
Subject: Workshop: Emergence... of Infectious Diseases, June 10-11,CRM, Spain
Workshop on Emergence, Spread and Control of Infectious Diseases, June 10-11
2013, CRM, Barcelona, Spain
Centre de Recerca Matemàtica (www.crm.cat) cordially invites participants
for a 2-days workshop on Emergence, Spread and Control of Infectious
Diseases, which is organized in the framework of the Mathematics of Planet
Earth 2013 (MPE2013) programme. The goal of the workshop is to bring
together biologists and mathematician, and discuss aspects such as emergence
and evolution of pathogens; invasion and spread of novel pathogens; impact
of climate change to emergence of infections; control of infectious
diseases.
Date: June 10 to 11, 2013.
Place: CRM, Bellaterra (Barcelona), Spain
Subject areas: Infectious diseases; Mathematical modelling; Computer
simulation; Multiscale modelling; Dynamical systems; Control and
Optimization.
Organizers: Andrei Korobeinikov and Ms. Núria Hernandez
Scientific Committee: Àngel Calsina, Joan Saldaña, Vladimir Sobolev
For other detail and to register please click:
www.crm.cat/2013/infectiousdiseases
You also can contact Ms. Núria Hernandez nhernandez@crm.cat or Andrei
Korobeinikov akorobeinikov@crm.cat
Please note that this Workshop will take place just after the Workshop on
Slow-Fast Dynamics: Theory, Numerics, Application to Life and Earth Sciences
(June 3 to 7, 2013).
http://www.crm.cat/en/Activities/Pages/ActivityFoldersAndPages/Curs%202012-2013/slowfastdynamics.aspx
----------------------------------------------------
From: Ethel Stanley <ethelstanley@gmail.com>
Date: Thu, Feb 28, 2013 at 1:14 PM
Subject: Workshop: BioQUEST Summer 2013 Workshop, June 10-16, Emory U., GA
Website: http://bioquest.org/summer2013/
Please consider joining us this summer for our BioQUEST Summer
Workshop: Ten Years After Using Data in the Classroom: Problem Based
Approaches with Data, Tools, Simulations, and Games. The workshop runs
June 10-16, 2013 at Emory University in Atlanta, GA.
We will explore problem spaces with online tools and data, then join
with a diverse community of innovative educators from several national
projects on June 12-15, 2013 including HHMI projects: Quantitative
Biology, Numbers Count, PULSE; NSF projects: PULSE, C3 Cyberlearning,
Science Case Network RCN, MathBench, and NIMBioS; and the Emory
Center for Science Education. The HHMI Quantitative Biology meeting
will offer a choice of ten working sessions from introductory
statistics to gaming.
BioQUEST participants will then have an opportunity to develop new
materials for the classroom or to work on funding proposals using the
resources on quantitative reasoning, biological data, problem based
approaches, and global STEM connections. See registration deadlines
and application (http://bioquest.org/bq2013-registration/)
Please contact Ethel Stanley (ethelstanley@gmail.com)
if you have any questions.
----------------------------------------------------
From: Anderson, Talia M <tander@indiana.edu>
Date: Thu, Feb 28, 2013 at 4:39 PM
Subject: Summer School: From Cells to Ecosystems.., July 8?26,
Porto Alegre, Brazil
Pan-American Advanced Studies Institutes Presents: From Cells to
Ecosystems: Frontiers in Collaborative Quantitative Physics-Based
Multiscale Modeling of Biological Processes
July 8 ? 26, 2013
Porto Alegre, Brazil
sites.google.com/site/pasipoa2013/
Background: The application of physics-based methods to develop
quantitative, predictive multiscale models of complex biological
phenomena is one of the most rapidly growing and exciting areas of
contemporary biology. New open-source software platforms make the
development of such models easier than ever before. This workshop will
gather researchers from throughout the Americas at levels from
advanced undergraduate student to senior faculty and representing the
biological, physical, computational and mathematical sciences in an
intensive course program to teach these methods via tutorials and
hands-on computer laboratories.
Goals: The main objectives are to educate young investigators in
modeling methods they can apply to their own research, introduce them
to advanced techniques in which combinations of methods can be used to
span multiple scales, and to increase the integration of research
between USA and Latin American countries in interdisciplinary
biological modeling.
Topics: Techniques for modeling subcellular dynamics of the
cytoskeleton, reaction-kinetic modeling of biochemical networks,
quantification and representation of cell behaviors and multicellular
interactions, emergent pattern formation during development and
disease, multiscale interactions in complex tissues and the analogies
between cells in tissues and organisms in ecosystems.
Format: The workshop will consist of a limited number of lectures and
hands-on computer tutorials and will include brief oral presentations
by all participants, regardless of level.
Instructors: A. Mogilner (University of California at Davis, USA); H.
Sauro (University of Washington, USA); R.M.C. de Almeida (Universidade
Federal do Rio Grande do Sul, Brazil); J.A. Glazier and M. Swat
(Indiana University, USA); S. Schnell (University of Michigan, USA),
L. G. Morelli (Universidad de Buenos Aires, Argentina); P. Maini
(University of Oxford, UK); A. Erdemir (Cleveland Clinic, USA); C.A.
Hunt (University of California San Francisco, USA); H. Fort
(Universidad de la Republica, Uruguay); T. Penna (Universidade Federal
Fluminense, Brazil).
Audience: Experimental, Mathematical and Computational Biologists,
Biophysicists, Biologists at the advanced undergraduate, graduate and
post-graduate levels.
Fees: There is no registration fee. Travel support is available for
qualified applicants.
Application and Registration: We will recruit experimentalists and
theoretical researchers with strong interests in tissue and ecosystem
modeling and developers of alternative modeling approaches.
Registration through website listed below. Registration deadline May
15, 2013.
Facilities: Instituto de Física, UFRGS, Porto Alegre, Brazil.
Website: sites.google.com/site/pasipoa2013/
----------------------------------------------------
From: Nedelman, Jerry <jerry.nedelman@novartis.com>
Date: Wed, Feb 27, 2013 at 10:32 PM
Subject: Summer Internship Opportunity at Novartis Pharmaceuticals, New Jersey
The Modeling and Simulation Department of Novartis Pharmaceuticals is
looking for Summer Interns for its location in East Hanover, NJ The
members of the department support model-based drug development by
working with multidisciplinary clinical teams worldwide.
Two internships are available for graduate students in biomathematics
and related fields.
Opportunity #1:
Hormonal systems are important in drug development either as targets
of therapy for diseases such as Cushing?s disease and acromegaly, or
as side effects such as hyperglycemia. The physiological literature is
replete with complicated feedback control models for such hormonal
systems. But most of those models require much more intensively
sampled data for modeling fitting and validation that can be obtained
from clinical trials.
The purpose of the internship will be to examine existing models for
one or more of such systems of relevance to Novartis development
projects and to find practical model reductions that might be useful
for interpretation of clinical data and guidance into clinical
decision making, especially as regards dose regimen selection.
An intern candidate must be a graduate student with training in
modeling of biological systems, including stochastic approaches and
statistical data analysis.
Opportunity #2:
Aid in further development and/or application of a large-scale
mechanistic model of blood pressure regulation, kidney function, and
heart failure. Depending on candidate?s background and experience,
tasks may include:
1) Compiling and synthesizing relevant clinical literature
2) Calibration/refinement of a specific component of the model
3) Application of the model to a specific drug-development question
4) Development of tools for automating modeling activities
Desired background: PhD candidate in biomedical engineering, systems
biology, or closely related field. Some previous experience with
modeling of biological systems is desired. Cardiovascular background
would be ideal but not necessary. Must be comfortable using Matlab.
If you are interested, please contact Jerry Nedelman
(jerry.nedelman@novartis.com).
----------------------------------------------------
From: Mark Goldman <msgoldman@ucdavis.edu>
Date: Sun, Feb 24, 2013 at 6:37 PM
Subject: MBL Computational Neuroscience Course 2013: Registration
deadline March 6
Applications are open for the Methods in Computational Neuroscience
course at the Marine Biology Laboratory in Woods Hole, MA. The course
dates will be July 31 - August 28, 2013, and the online application
form can be found at:
http://hermes.mbl.edu/education/admissions/applications/index.html.
Note that the course application deadline is *March 6*.
The course covers a range of topics in computational neuroscience
including neuronal biophysics, neural coding & information processing,
circuit dynamics, learning & memory, motor control, and cognitive
processing & disease. In addition, numerous tutorials and problem
sets will cover a broad range of computational and mathematical
modeling methods. The course strongly emphasizes the collaboration
between theory and experiment in solving neuroscience problems, and
lectures will be given by a mixture of theorists and experimentalists.
The final weeks of the course will primarily be reserved for
development and work on projects that students design in collaboration
with the resident faculty. Further information can be found on the
course website:
http://hermes.mbl.edu/education/courses/special_topics/mcn.html.
2013 Course Directors:
Michale Fee, MIT
Mark Goldman, UC Davis
----------------------------------------------------
From: Kirsten Wilden <Wilden@siam.org>
Date: Wed, Feb 27, 2013 at 11:24 AM
Subject: SIAM Conference on Applications of Dynamical Systems, May 19-23, Utah
SIAM Conference on Applications of Dynamical Systems (DS13) -
Registration and Program Now Available!
Conference Name:
SIAM Conference on Applications of Dynamical Systems (DS13)
Location:
Snowbird Ski and Summer Resort, Snowbird, Utah, USA
Dates:
May 19-23, 2013
Co-chairs:
Charles Doering, University of Michigan, USA
George Haller, ETH Zürich, Switzerland
Registration and the conference program are now posted at:
http://www.siam.org/meetings/ds13/
PRE-REGISTRATION DEADLINE
April 22, 2013: Disconnect time is 4:00 PM EDT
HOTEL RESERVATION DEADLINE
April 19, 2013
Twitter hashtag: #SIAMDS13
For additional information, contact the SIAM Conference
Department at meetings@siam.org.
----------------------------------------------------
From: Terry, John <J.Terry@exeter.ac.uk>
Date: Thu, Feb 28, 2013 at 5:28 PM
Subject: Conference: BioDynamics 2013 Conference - Bristol, UK
1st announcement of BioDynamics 2013 Conference - Bristol, UK
I'm pleased to announce that registration is now open for a new
multidisciplinary meeting that will bring mathematicians, biologists
and clinicians together. We have got an exceptional list of invited
speakers, who are world leaders in their respective disciplines: (
Russell Foster (Oxford), Michael Hastings (Cambridge), David Hazelrigg
(Aberdeen), Allan Herbison (Otago), Kevin O'Byrne (King's College
London), David Rand (Warwick) and James Sneyd (Auckland)). There will
be the opportunity to submit abstracts for contributed talks, and
there will also be poster sessions, with prizes for the best
postgraduate posters.
For more information and to register, please visit the conference website:
http://www.bio-dynamics2013.org
For users of social media, we have a Facebook page:
http://www.facebook.com/biomed.dynamics
----------------------------------------------------
From: Stephen Parnell (RRes-Roth) <stephen.parnell@rothamsted.ac.uk>
Date: Wed, Feb 27, 2013 at 8:20 AM
Subject: Postdoc: Research Scientist/Ecological/Epidemiological Modeller, UK
Post-doctoral Research Scientist / Ecological/Epidemiological Modeller
Opportunities
Rothamsted Research, the UK?s oldest and largest agricultural research
centre, is seeking suitably qualified mathematical modellers,
ecologists and epidemiologists for up to four post-doctoral positions
to work on applied aspects of the epidemiology of plant pathogens.
These post-doctoral positions are available within the Computational
and Systems Biology Department in two generic areas:
Invasive plant pathogens: Increases in global trade have led to a vast
increase in invasive plant disease epidemics with serious consequences
for both nature conservation and food security. Projects are
available developing methods to advise on surveillance and control of
such invaders.
Durable disease control: The evolution of new pathogen strains that
overcome existing disease control is a central threat to food
security. Projects are available developing methods that minimise
selection for new strains and improve the durability of disease
control.
The successful applicants will work on important current applications,
including (i) a range of forest tree diseases such as sudden oak death
(Phytophthora ramorum), acute oak decline (casual organism unknown)
and ash dieback (Chalara fraxinea) and (ii) a range of crop diseases
such as Stem rust Ug99 (Puccinia graminis f.sp.tritici), a pathogen of
wheat threatening recurrent famine in parts of Africa and Asia,
cassava virus diseases in Africa and a range of fungal disease of
wheat in the UK.
As well as address fundamental research questions in this area, the
post-holders will have the opportunity to work closely with regulatory
agencies and international partners to have a tangible impact on
control strategies in practice. Therefore the successful applicants
must have strong quantitative skills and experience in ecological or
epidemic modelling.
Informal enquires about these positions can be directed to Dr Frank
van den Bosch (frank.vandenbosch@rothamsted.ac.uk) or to Dr Stephen
Parnell (stephen.parnell@rothamsted.ac.uk). The positions are
full-time within Band D and attract a starting salary within the range
£26,745 and £31,677. The positions available range between three to
five years in duration.
Apply by application form only, available with further particulars
from www.rothamsted.ac.uk or from the HR Group, Rothamsted Research,
Harpenden, Herts, AL5 2JQ, rres.hr@rothamsted.ac.uk. Please quote
reference 1244.
Closing date: 28 March 2013
----------------------------------------------------
From: Shweta Bansal <sb753@georgetown.edu>
Date: Thu, Feb 21, 2013 at 6:19 PM
Subject: Postdoc. Research Associate Position, Georgetown University
POSTDOCTORAL RESEARCH ASSOCIATE
Department of Biology, Georgetown University, Washington DC, USA
Applications are invited for a postdoctoral research associate
position in the prediction and containment of livestock diseases with
spatio-temporal network modeling.
This position will be funded by the U.S. Department of Homeland
Security (DHS) and will be based in the group of Shweta Bansal
(http://bansallab.com) at Georgetown University. Successful applicants
will develop mathematical and statistical network models for
partially-observed data and apply them to inform control or management
of infectious disease in U.S. livestock populations. The ideal
candidate has a PhD in statistics, applied mathematics or another
highly quantitative field and previous experience in the analysis of
epidemiological or ecological systems with network models.
Initial appointments will be for one year, with possible renewal to a
second year depending on progress. The salary will be in the range of
$48,000-54,000 per year (depending on experience), plus fringe
benefits. The position is available to be filled immediately, but the
starting date is negotiable.
Georgetown University is a vibrant scientific community and the
successful applicant will be afforded many opportunities for
professional development. Washington D.C. offers a rich cultural and
intellectual life, in the heart of the U.S. policy scene.
For further information, contact Shweta Bansal (e-mail:
sb753@georgetown.edu). Applicants should send a cover letter, a
detailed CV, a brief statement of research interests, and names and
contact information for three references. The cover letter should
discuss possible starting dates.
Review of applications will begin immediately and will continue until
the post has been filled.
----------------------------------------------------
From: von Lieres, Eric <e.von.lieres@fz-juelich.de>
Date: Fri, Mar 1, 2013 at 3:16 AM
Subject: Postdoc Position: Comp Sci Eng / Comp Biology, Juelich
At the Research Center Juelich, we are seeking a highly motivated and
creative postdoc with sound expertise in computational science and some
background in biotechnology. This project is a collaboration between the
Biotechnology Institute (IBG-1) and the Juelich Supercomputing Center (JSC).
The position is available immediately and offered for 2 years. Juelich is
Germany's largest research center with more than 5000 employees and hosts
Europe's largest supercomputer JUQUEEN. The Biotechnology Institute has a
long tradition in industrial biotechnology and, in particular, biochemical
network modeling.
In the project, a multi-scale modeling approach will be applied for bridging
time and length scales between molecular mechanisms and process outputs. A
major task will be to evaluate and couple simulation codes for Brownian
dynamics (BD), cellular automata (CA) and partial differential equations
(PDE). Improving the scalability on our supercomputers will also be an
issue, in order to compute realistically sized examples. The methods will
then be used for studying the impact of in-vivo diffusion and channeling of
macromolecules, geometry related effects at membrane surfaces and in
micro-channels, and related multi-scale phenomena.
Candidates should have a PhD degree in computational science and engineering
(CSE) or a related field, with sound programming experience in C/C++. The
ideal candidate would also have a decent publication record, parallel
programming skills, and some background in statistical thermodynamics and/or
computational biology/biotechnology. Applications, containing the
candidate's CV with recent publications, a statement of current and future
career goals, and names of 3 referees should be sent by email to
Dr. Eric von Lieres (e.von.lieres@fz-juelich.de)
----------------------------------------------------
Subject: SMBnet Reminders
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The contents of this publication may be reproduced in whole or in part with
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End of SMB Digest
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