---------------------------------------------------- Subject: SMB Digest v08i30 SMB Digest August 12, 2008 Volume 08 Issue 30 ISSN 1086-6566 Editor: Ray Mejía ray(at)smb(dot)org *** IMPORTANT NOTICE *** Some submissions to the Digest are not being delivered. Until further notice please copy math-smbnet@list.auckland.ac.nz to insure receipt. If you have sent an announcement recently, and it has not appeared in the Digest, please send it again and copy the address shown above. Sorry for the inconvenience. 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/index.shtml . 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: Letter from the SMB President TOC: Bulletin of Mathematical Biology, Volume 70, Number 6 TOC: Comput & Math Methods in Medicine, Vol 9, Issue 3 & 4 DIMACS Workshop on Computational Issues in Genetic Epidemiology Postdoctoral Position: Applied & Computational Mathematics, IUPUI Chair: Biomedical Engineering, University of Texas at Austin SMBnet Reminders ---------------------------------------------------- From: "Avner Friedman" Date: 08/07/2008 10:58AM Subject: Letter from the SMB President Dear Friends, I have just returned from the annual Society of Mathematical Biology (SMB) conference in Toronto, Ontario, Canada. This was an exhilarating experience: So many interesting talks and so many young researchers! The SMB is a 35 year old society but maintains a young spirit. SMB?s journal, Bulletin of Mathematical Biology (BMB), is a leading journal in the field. We have just awarded for the first time, the Lee Segel Prize for the best paper and for the best student paper that were published in the BMB within the last two years. The SMB Newsletter, in new, glossy print, began publishing research nuggets and autobiographies of researchers in mathematical biology. The Board of Directors decided to hold the next annual summer conferences in Vancouver (2009) and Rio de Janeiro (2010). SMB members will receive discounted registration to these meetings. The SMB is not only a scientific society; it is really a community that cares about its members. I urge those of you who are not members of the SMB to join. The membership dues are only $50 for full members and $25 for student members with additional discounts for residents of developing countries and joint members of ESMTB and JSMB. All memberships include subscription to the Bulletin of Mathematical Biology in print and/or electronic access. You can sign up for your membership online at: http://www.smb.org/membership/index.shtml Have a wonderful rest of the summer! Avner Friedman SMB President ---------------------------------------------------- From: Springer Date: Tue, Aug 5, 2008 at 6:44 PM Subject: TOC: Bulletin of Mathematical Biology, Volume 70, Number 6 Volume 70 Number 6 of Bulletin of Mathematical Biology is now available at http://www.springerlink.com/content/p88205k51204/?p=205474c18c604c0d87a0f9efa32fa4fa&pi=0 Overview of Mathematical Approaches Used to Model Bacterial Chemotaxis I: The Single Cell Author(s) M. J. Tindall, S. L. Porter, P. K. Maini, G. Gaglia, J. P. Armitage Page 1525 - 1569 Overview of Mathematical Approaches Used to Model Bacterial Chemotaxis II: Bacterial Populations Author(s) M. J. Tindall, P. K. Maini, S. L. Porter, J. P. Armitage Page 1570 - 1607 Synchrony and Asynchrony in a Fully Stochastic Neural Network Author(s) R. E. Lee DeVille, Charles S. Peskin Page 1608 - 1633 Sensitivity Analysis of Reactive Ecological Dynamics Author(s) Ariane Verdy, Hal Caswell Page 1634 - 1659 When Activators Repress and Repressors Activate: A Qualitative Analysis of the Shea-Ackers Model Author(s) TomáÚ Gedeon, Konstantin Mischaikow, Kate Patterson, Eliane Traldi Page 1660 - 1683 Stochastic Models for Phototaxis Author(s) Doron Levy, Tiago Requeijo Page 1684 - 1706 A Mathematical Model for the Effects of HER2 Overexpression on Cell Proliferation in Breast Cancer Author(s) Amina Eladdadi, David Isaacson Page 1707 - 1729 Image-Guided Modeling of Virus Growth and Spread Author(s) Eric L. Haseltine, Vy Lam, John Yin, James B. Rawlings Page 1730 - 1748 Modeling and Estimation of Kinetic Parameters and Replicative Fitness of HIV-1 from Flow-Cytometry-Based Growth Competition Experiments Author(s) Hongyu Miao, Carrie Dykes, Lisa M. Demeter, James Cavenaugh, Sung Yong Park, Alan S. Perelson, Hulin Wu Page 1749 - 1771 Network Development in Biological Gels: Role in Lymphatic Vessel Development Author(s) Tiina Roose, Andrew C. Fowler Page 1772 - 1789 Saddle-Point Approximations, Integrodifference Equations, and Invasions Author(s) Mark Kot, Michael G. Neubert Page 1790 - 1826 ---------------------------------------------------- From: "Sternberg, Zoe" Date: Tue, 5 Aug 2008 20:38:24 +0100 Subject: TOC: Comput & Math Methods in Medicine, Vol 9, Issue 3 & 4 Computational and Mathematical Methods in Medicine - Special Issue on Mathematical Virology http://www.informaworld.com/smpp/title~content=g795319689~db=all Guest Editors: Peter G. Stockley and Reidun Twarock Read the editorial for FREE. Special Issue available for purchase for US$29. Preamble FREE ACCESS FREE ACCESS 165 - 166 Exploring the interplay between virology and molecular crystallography 167 - 173 Author: Aloysio Janner Classification and evolutionary trends of icosahedral viral capsids 175 - 181 Author: Richard Kerner A comparative analysis of the structural architecture of ssDNA viruses 183 - 196 Authors: Antonette Bennett; Robert McKenna; Mavis Agbandje-McKenna Irregular and semi-regular polyhedral models for Rous sarcoma virus cores 197 - 210 Authors: J. Bernard Heymann; Carmen Butan; Dennis C. Winkler; Rebecca C. Craven; Alasdair C. Steven Dynamics of icosahedral viruses: What does viral tiling theory teach us? 211 - 220 Authors: Kasper Peeters; Anne Taormina New insights into viral architecture via affine extended symmetry groups 221 - 229 Authors: T. Keef; R. Twarock HIV-1 integrase-DNA interactions investigated by molecular modelling 231 - 243 Authors: C. Fenollar-Ferrer; V. Carnevale; S. Raugei; P. Carloni Polyomaviridae assembly polymorphism from an energy landscape perspective 245 - 256 Authors: Karim M. ElSawy; Leo S. D. Caves; Reidun Twarock Biologic constraints on modelling virus assembly 257 - 264 Author: Robert L. Garcea SV40 assembly in vivo and in vitro 265 - 276 Authors: Ariella Oppenheim; O. Ben-nun-Shaul; S. Mukherjee; M. Abd-El-Latif Pathway complexity of model virus capsid assembly systems 277 - 293 Authors: Navodit Misra; Daniel Lees; Tiequan Zhang; Russell Schwartz The influence of symmetry on the probability of assembly pathways for icosahedral viral shells 295 - 302 Authors: Miklos Bona; Meera Sitharam DNA knotting in spooling like conformations in bacteriophages 303 - 316 Authors: J. Arsuaga; Y. Diao Computer simulations of DNA packing inside bacteriophages: Elasticity, electrostatics and entropy 317 - 325 Author: D. Marenduzzo Conformational changes in the connector protein complex of the bacteriophage \phi29 DNA packaging motor 327 - 337 Authors: Arron C. Tolley; Nicola J. Stonehouse RNA packing specificity and folding during assembly of the bacteriophage MS2 339 - 349 Authors: Ottar Rolfsson; Katerina Toropova; Victoria Morton; Simona Francese; Gabriella Basnak; Gary S. Thompson; Stephen W. Homans; Alison E. Ashcroft; Nicola J. Stonehouse; Neil A. Ranson; Peter G. Stockley RNA packaging motor: From structure to quantum mechanical modelling and sequential-stochastic mechanism 351 - 369 Authors: Jelena Telenius; Anders E. Wallin; Michal Straka; Hongbo Zhang; Erika J. Mancini; Roman Tuma ---------------------------------------------------- From: Linda Casals Date: Tue, 12 Aug 2008 10:08:25 -0400 (EDT) Resent-From: Raymond Mejia Subject: DIMACS Workshop on Computational Issues in Genetic Epidemiology DIMACS Workshop on Computational Issues in Genetic Epidemiology August 21 - 22, 2008 DIMACS Center, CoRE Building, Rutgers University Organizers: Andrew Scott Allen, Duke University, andrew.s.allen at duke.edu Ion Mandoiu, University of Connecticut, ion at engr.uconn.edu Dan Nicolae, University of Chicago, nicolae at galton.uchicago.edu Yi Pan, Georgia State University, pan at cs.gsu.edu Alex Zelikovsky, Georgia State University, alexz at cs.gsu.edu Presented under the auspices of the DIMACS/BioMaPS/MB Center Special Focus on Information Processing in Biology. Workshop Announcement: There is strong evidence that genes play a major role in susceptibility to all common human diseases. While linkage analysis has been very successful in finding the genes involved in Mendelian diseases such as Huntington disease, early onset Alzheimer's disease and cystic fibrosis, current interest has shifted towards mapping genes involved in diseases with complex etiologies such as diabetes and cancer, for which association studies have been shown to be more powerful. The workshop will bring together computer scientists, geneticists, and statisticians aiming to address current computational challenges in gene mapping, which include dealing with complex missing data patterns, multiple hypotheses testing, population substructure, gene-gene and gene-environment interactions. New directions of research, such as capturing the effects of structural genomic variation and using biological networks in whole-genome studies, will also be investigated. Registration: Pre-registration deadline: August 14, 2008 Please see website for additional registration information. Information on participation, registration, accommodations, and travel can be found at: http://dimacs.rutgers.edu/Workshops/ComputationalIssues/ **PLEASE BE SURE TO PRE-REGISTER EARLY** ---------------------------------------------------- From: Luoding Zhu Date: Tue, 05 Aug 2008 15:29:12 -0400 Subject: Postdoctoral Position: Applied & Computational Mathematics, IUPUI The Department of Mathematical Sciences and the Center for Mathematical Biosciences at the Indiana University-Purdue University Indianapolis (IUPUI) invite applications for a one-year postdoctoral position in the area of applied and computational mathematical science. This position may be renewed for an additional year based upon the availability of funds. Starting date is negotiable. Applicants should have a Ph.D in Mathematics, Mechanical Engineering, Computer Science, or other related fields. The candidates are expected to have fluid mechanics knowledge at the graduate level and working experience in scientific computing. The postdoctoral fellow will participate an ongoing NSF funded project of developing an immersed boundary method and its applications in biofluid mechanics. IUPUI is a young large urban research university that has been growing rapidly. The Center for Mathematical Biosciences and the School of Medicine on the IUPUI campus provide an excellent environment for collaborative research in many areas of quantitative biosciences such as biofluid mechanics. We are located in the downtown of Indianapolis, the 12th largest city in USA, which offers the lower-than-average cost of living and one of the most affordable housing markets in the USA. If interested, please send your current CV including a list of publications, research statement, and contact information for three references to Dr. Luoding Zhu via e-mail: lzhu@math.iupui.edu, or by regular mail to: 402 N. Blackford Street, LD 270, Indianapolis, IN 46202. IUPUI is an EEO/AA Employer, M/F/D. ---------------------------------------------------- From: Mia K. Markey Date: Thu, 7 Aug 2008 13:32:01 -0500 Subject: Chair: Biomedical Engineering, University of Texas at Austin The University of Texas at Austin seeks an experienced and imaginative academic leader with a distinguished record of accomplishments in research to fill the position of Chair of the Department of Biomedical Engineering. The Department is active in both teaching and research missions in the highly ranked Cockrell School of Engineering with faculty members whose research interests encompass all aspects of biomedical engineering. The BME Chair has responsibility for leading the Department in the development of new research and educational programs in biomedical engineering. The Department, consisting of 18 primary faculty members and more than 50 affiliated faculty members from UT Austin and other institutions, has a very strong externally funded research program. The Department is housed in a newly completed, 140,000 sq. ft. BME building with state-of-the-art facilities. Faculty members actively participate in both fundamental and translational research in the Department and in many research centers of the School of Engineering and University. The Chair is expected to attract and mentor high quality faculty, and to further expand the research activities of the Department. Excellence in education is a high priority of the Department. An ABET-accredited undergraduate BME program offers BS degrees in Biomedical Engineering and has approximately 450 students. The graduate program of more than 100 students offers both M.S. and Ph.D. degrees in Biomedical Engineering. The Department has an NSF funded training grant and the Chair is expected to initiate and promote new educational and training programs both at the undergraduate and graduate levels The BME Department at the University of Texas at Austin is committed to interdisciplinary research and, as such, is an integral part of the Inter-Institutional Department of Biomedical Engineering at the University of Texas consisting of the BME Departments at the University of Texas at Austin (UTA), the University of Texas M.D. Anderson Cancer Center (UTMDACC), and the University of Texas Health Science Center at Houston (UTHSC-H). This Inter-Institutional organization combines the strengths of premier engineering and medical institutions to create an extraordinary center of excellence in biomedical engineering with exceptional resources. The Chair is a member of the Inter-institutional Executive Committee, consisting of the three chairs at each institution, which oversees the coordination of Inter-institutional organization and the three member institutions. A successful candidate for this position will have a Ph.D., M.D., or equivalent degree(s), with academic achievements commensurate with appointment as a full professor with tenure, a highly distinguished record of research in biomedical engineering, international recognition in the field of biomedical engineering, and demonstrated administrative skills and experience. The candidate must be a strong leader, a capable motivator, and be able to develop the talents of others in support of the Department's mission. It is expected that the Chair will be an active participant in research and teaching activities. A curriculum vitae, names of three to five references (with titles, affiliations and complete contact information), and a brief synopsis of experience and career goals should be both e-mailed and mailed to the attention of the Department Manager, Joni Burks (burks@mail.utexas.edu). Mailing address: Department of Biomedical Engineering, 1 University Station -- MC C0800, The University of Texas at Austin, Austin, TX 78712. Women and minority candidates are encouraged to apply. The University of Texas at Austin is an EO/AA employer. M/F/D/V. This is a security sensitive position and thereby subject to Texas Education Code 51.215. A background check will be required for the final candidate. ---------------------------------------------------- Subject: SMBnet Reminders To subscribe to the SMB Digest please point your browser at http://list.auckland.ac.nz/mailman/listinfo/math-smbnet and complete the subscription information. Alternatively, if you prefer to simply receive notice when the next issue is available, send mail to LISTSERV@listserv.biu.ac.il 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 may be sent to SMBnet(at)smb(dot)org with a copy to math-smbnet@list.auckland.ac.nz . Items of interest to the mathematical biology community may be submitted for inclusion in the SMBnet archive. See instructions at: http://smb.org/publications/SMBnet/pubs/fyi . The SMB Digest is also available on the SMB Home Page at http://smb.org/publications/SMBnet/digest/ The contents of this publication may be reproduced in whole or in part with attribution. End of SMB Digest **************************************************** ----------------------------------------------------