---------------------------------------------------- Subject: SMB Digest v10i05 SMB Digest February 5, 2010 Volume 10 Issue 5 ISSN 1086-6566 Editor: Ray Mejía ray(at)smb(dot)org 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: ESF Theme School: Simulation Tools Applied to Calcium Dynamics CISP'10-BMEI'10 Submission Deadline 15 April, Yantai, China EMBO|EMBL Symposia: Human Variation: Cause and Consequence, 20-23 June CfP: IEEE International Workshop on AMFG2010, June 14, San Francisco Conference: Fluid Dynamics: From Theory to Experiment, June 7-10 Bi-Monthly News from NIMBioS VPHOP Monthly Newsletter Postdoc: Modelling and Health Economics, NCHECR, Australia Postdoc: Mathematical Modelling & Simulation ..., Politecnico di Milano Postdoctoral Positions: MALIN, IGC, Portugal Assistant Professor Position: Math & Stat, University of New Mexico NIH Research Jobs - February Update SMBnet Reminders ---------------------------------------------------- From: Ursula Kummer Date: Wed, 03 Feb 2010 08:45:19 +0100 Subject: ESF Theme School: Simulation Tools Applied to Calcium Dynamics There will be ESF Theme School about "Simulation Tools applied to Calcium Dynamics" at Bioquant, Heidelberg, Germany from March 14-19, 2010. More information at http://funcdyn.org/workshops/esf-science-meeting-simulation-tools-applied-to-calcium-dynamics This is aimed at graduate students/postdoctoral researchers who either want to get an overview over different modeling techniques or learn about calcium dynamics in general. Application deadline is February, 19th. There are up to 30 fellowships covering fees, accommodation and travel for European participants. So, if you are interested, please apply according to the posted information at the website. ---------------------------------------------------- From: CISP'10-BMEI'10 [cisp_bmei_cfp@ytu.edu.cn] Sent: Monday, February 01, 2010 3:47 PM Subject: CISP'10-BMEI'10 Submission Deadline 15 April, Yantai, China Dear Colleague, The 3rd International Congress on Image and Signal Processing (CISP 2010) and the 3rd International Conference on BioMedical Engineering and Informatics (BMEI 2010) will be jointly held in Yantai, China. Yantai was listed as one of the world's most inhabitable places by the United Nations and was recognized as the "most charming city of China" by China Central Television. Undulating hills rise above the area's many rivers and are framed by beaches and neighboring islands. During summer, the breeze wafts from the sea, and the hills become ornamented with a sea of wildflowers. Famous tourist attractions include the Tashan Mountain, Kongdong Island, and Penglai Pavilion Scenic Area. Seafood and fruits are plentiful in Yantai. CISP'10-BMEI'10 is a premier international forum for scientists and researchers to present the state of the art of multimedia, signal processing, biomedical engineering and informatics. The previous CISP'09-BMEI'09 attracted over 3000 submissions from around the world. The registration fee of US$390 includes proceedings, lunches, dinners, banquet, coffee breaks, and all technical sessions. CISP'10-BMEI'10 is technically co-sponsored by the IEEE Engineering in Medicine and Biology Society. Selected best papers will appear in SCI-indexed journal(s). All papers in conference proceedings will be indexed by both EI Compendex and ISTP, as well as the IEEE Xplore (CISP 2010 IEEE Catalog Number: CFP1094D-PRT, ISBN: 978-1-4244-6514-9; BMEI 2010 IEEE Catalog Number: CFP1093D-PRT, ISBN: 978-1-4244-6496-8). For more information, visit the conference web page: http://cisp-bmei2010.ytu.edu.cn If you have any questions after visiting the conference web page, please email the secretariat at cisp_bmei@ytu.edu.cn Join us at this major event in beautiful Yantai !!! ---------------------------------------------------- From: EMBL Courses & Conferences Date: Tue, Feb 2, 2010 at 10:54 AM Subject: EMBO|EMBL Symposia: Human Variation: Cause and Consequence, 20-23 June Dear colleagues, we like to announce the first symposia from our brand new EMBO|EMBL Symposia Series: Human Variation: Cause and Consequence, 20 - 23 June 2010 which takes place in Heidelberg, Germany at the Advanced Training Centre on EMBL Campus. Please check the conference website for more information: www.embo-embl-symposia.org EMBO | EMBL Symposia provide a platform to discuss and exchange ideas on forward-looking topics and new developments in the life sciences. Jointly organised by EMBO and EMBL - and complementary to their respective courses and conference programmes - the symposia promote scientific communication and collaboration in Europe. Up to six symposia are planned annually and each symposium will be held in the 450-seat auditorium of the new EMBL Advanced Training Centre (ATC) in Heidelberg, Germany. The goal of this Symposium is to explore human genetic and phenotypic variability in the light of recent developments in genomics, genetics and molecular medicine. The topics covered will include the mechanisms of mutation, normal sequence variation from the DNA to the chromosomal level, functional polymorphism and disease genetics. Registration is on a first-come, first-served basis. Registration and abstract deadline: 28 March 2010 There is a limited number of fellowships available, further info you will find on the website. You are welcome to circulate this announcement to interested members and groups within your institute. If you have any questions, please do not hesitate to contact me. Kind regards, Gwen Gwen Sanderson Conference Officer European Molecular Biology Laboratory Meyerhofstr. 1 D-69117 Heidelberg Tel: +49-6221-387 8835 Fax: +49-6221-387 8158 Email: gwen.sanderson@embl.de ---------------------------------------------------- From: Shuicheng Yan Date: Fri, Feb 5, 2010 at 1:08 AM Subject: CfP: IEEE International Workshop on AMFG2010, June 14, San Francisco Call For Paper: IEEE International Workshop on Analysis and Modeling of Faces and Gestures (AMFG2010), in conjunction with CVPR 2010 IEEE International Workshop on Analysis and Modeling of Faces and Gestures (AMFG2010) --- Towards Large-Scale Data from Real-World Environments Website: http://www.lv-nus.org/AMFG2010/ Important Dates: 1.  Paper Submission: Mar 10, 2010 2.  Notification of Acceptance: Apr 07, 2010 3.  Camera-ready Version: Apr 14, 2010 4.  Workshop Date: Jun 14, 2010 ---------------------------------------------------- From: Isaac Klapper Date: Fri, Feb 5, 2010 at 9:55 AM Subject: Conference: Fluid Dynamics: From Theory to Experiment, June 7-10 Date: June 7-10, 2010 Location: Montana State University, Bozeman, Montana Website: https://toto.msu.montana.edu/cs/fluid Please note that a meeting on Fluid Dynamics: From Theory to Experiment, described at the website https://toto.msu.montana.edu/cs/fluid will be held in Bozeman MT June 7 - 10, 2010, in part to honor of W.S. Childress, who retired last year from the Courant Institute of Mathematical Sciences, NYU. The information provided at that website describes the program and how financial aid may by secured for the meeting. Bozeman is a small city located in the Rocky Mountains, approximately 90 miles drive from the world's first national park, Yellowstone National Park. Due in part to its popularity as a tourist destination, Bozeman has multiple daily air connections to each of Seattle, Salt Lake City, Denver, and Minneapolis as well as less frequent flights to other major hubs. The program of speakers will be outstanding, and it should provide students and young faculty an unusual opportunity to have contact with many prominent applied mathematicians and mathematical biologists. ---------------------------------------------------- From: NIMBioS Date: Thu, Feb 4, 2010 at 11:13 AM Subject: Bi-Monthly News from NIMBioS NIMBioS News Bi-Monthly News from the National Institute for Mathematical and Biological Synthesis http://campaign.constantcontact.com/render?v=0011-u4wRWTE7TQUNuwD0BlM33vty6KB-6gBHUTe_HJ-IcPHTEWY6omqTRoBRqv4Z7dFzFoUwnGSscQ7coXI-EbxZpabRwwDDwvn1DNnWaySTAeLD8j_jyG4_zjsdQe7O69aNphzcim6N0%3D ---------------------------------------------------- From: info@vphop.eu Date: Thu, 04 Feb 2010 12:04:16 +0100 Resent-From: Raymond Mejia Subject: VPHOP Monthly Newsletter VPHOP Monthly Newsletter The Osteoporotic Virtual Physiological Human Newsletter: January 2010 issue. http://www.vphop.eu/consortium.html From the Coordinator: VPHOP gets international I am glad to inform the VPHOP consortium and all friends and colleagues that receive VPHOP News that from January 1st, 2010 two satellite projects kicked-off to further strengthen the VPHOP cluster. The first is called NMS Physiome, where NMS stands for NeuroMusculoSkeletal, and define a three years cooperation between some partners of VPHOP and some partners of SIMBIOS, the USA NIH Center for physics-based Simulation of Biological Structures established at Stanford University. http://simbios.stanford.edu/ The project aims to create synergies between the work of the two consortia with respect to research communities (biomedtown.org and simbios.org), resource repositories (physiomespace.com and simtk.org) and to the modelling software tools (MAF and OpenSIM/FEBio). The second project, named MSV, aims to extend the MAF software we shall use in VPHOP to develop the end-user applications with capabilities to provide interactive visualisation of data defined on radically different spatiotemporal scales. This goal is pursued in collaboration with NA-MIC, the USA NIH National Alliance for Medical Image Computing Center. http://www.na-mic.org/ If you are interested to know more, I am in charge of NMS Physiome, whereas Debora Testi (B3C) is in charge of MSV. If the interest is widespread we could consider to present some activity of these two projects at our next annual meeting in Berlin. We recently kicked-off NMS Physiome, and the beginning was very positive. MSV will kick-off in a few days, but also in that case there are all the conditions for an excellent collaboration. We look forward to see these satellite projects to bring their results into the mainstream project, to further strengthen the technological excellence of the VPHOP consortium in the domain of multiscale neuromusculoskeletal model. Go VPHOP, go! Marco Viceconti LATEST NEWS * Military asked to resume 3D human body mapping technology A medical advisor to the U.S. military is urging the government to support the development of modeling technologies in order to create advanced computer simulations of the human body. Read more... * VPH Presented at the medical simulation community The SSH/ISBMS 2010 meeting in Phoenix, AZ, included a keynote plenary presentation dedicated to the Virtual Physiological Human. The talk, given by Marco Viceconti, Outreach Program responsible for the VPH Network of Excellence, presented the scope, vision, and the current development of the VPH initiative. This presentation targets one of the research communities, that of simulation in healthcare, which is considered neighbourhood domain for the VPH initiative. The high interest the presentation received confirmed that simulation in healthcare training, planning, and provision is a natural target application for VPH technologies. Read more... * International Summer School on Biomedical Imaging 9th IEEE EMBS (International summer school on biomedical imaging) Berder Island, France, 18-26 June, 2010 Read more... * Model Reproducibility for Physiome Research and the VPH Institute If you are involved in VPH research we need your help and support! Please look at the following news items which are petitions based on a Model Reproducibility statement and the creation of the VPH institute. Read more... FORTHCOMING EVENTS * eChallenges e-2010 Conference and Exhibition 27 - 29 October 2010, Warsaw, Poland Call for Papers Deadline - 26 February Read more... * IEEE EMBS International Summer School on Biomedical Imaging Read more... * WoHIT 2010 The World of Health IT Conference and Exhibition 2010 Read more... * Applied Computing Conference 2010 Hosted and Sponsored by Politehnica University of Timisoara - Civil Engineering Faculty Read more... * VPH-OBO Workshop Ontologies for the Virtual Physiological Human Read more... * Diagnostic and Interventional Radiology Read more... ---------------------------------------------------- From: Chris Bauch Date: Tue, Feb 2, 2010 at 3:13 PM Subject: Postdoc: Modelling and Health Economics, NCHECR, Australia 29 January 2010 Postdoctoral Research Fellow (Modelling and Health Economics) Faculty of Medicine National Centre in Epidemiology and Clinical Research REF. 6960 Salary Level A: A$56K- A$74K (plus 17% employer superannuation plus leave loading) We are seeking a motivated individual to join our rapidly expanding team within one of Australia's premier research Centres. The National Centre in HIV Epidemiology and Clinical Research is a rapidly expanding and internationally respected research organisation primarily focused on research into the clinical and public health aspects of blood borne viral and sexually transmitted infections. We are seeking to recruit a dynamic and experienced researcher with a background in epidemiological and other public health research related to infectious diseases. This is an ideal opportunity for the right person to further enhance their research profile in a well funded, supportive team environment. The successful applicants will, in collaboration with senior researchers, carry out mathematical modelling and health economics analyses for investigating hepatitis C prevention and treatment strategies. The postdoctoral research fellow position requires high-level expertise in mathematical modelling and health economics, as well as (ideally) project management preferably in hepatitis C and excellent communication skills. The ideal candidate will have a PhD (or be close to submission) in mathematics, health economics, decision science, physics, epidemiology, computer science or a related discipline, a research and publication record and a strong collegial attitude. Experience in working with complex mathematical models, including some or all of: model construction, debugging, calibration, sensitivity analysis, presentation to clinical and policy audiences, and publications in high quality journals, are highly desirable. This is a two year fixed term, full-time appointment with the possibility of extension on the basis of performance and available funding. Applicants should obtain a copy of the position description and systematically address the selection criteria in their application. Having read all the documentation you may then direct any enquiries to A/Professor David Wilson or Dr Rosie Thein on (02)9385 0900 or email dwilson@nchecr.unsw.edu.au / rthein@nchecr.unsw.edu.au Applications close : 19 February 2010 ---------------------------------------------------- From: Davide Ambrosi Date: Wed, Feb 3, 2010 at 2:38 AM Subject: Postdoc: Mathematical Modelling & Simulation ..., Politecnico di Milano Postdoc positions at the Politecnico di Milano -- Two postdoc positions are now available at MOX - Dipartimento di Matematica, Politecnico di Milano. The grants are supported by the Mathcard project "Mathematical Modelling and Simulation of the Cardiovascular System" (www.mathcard.eu) headed by professor Alfio Quarteroni. Theme 1: Multiscale fluid dynamics and fluid--structure interaction. Suitable candidates should hold a PhD in applied mathematics, physics, or engineering, with a strong background in computational mechanics (finite elasticity and/or fluid mechanics) and numerical methods, in particular finite elements.  He/she should also have strong skills and passion for scientific programming and is supposed to take a leading role in the development of the scientific software LifeV (www.lifev.org) Theme 2: Mathematical modelling of coupled problems in the cardiovascular system. Suitable candidates should hold a PhD in applied mathematics, physics, or engineering, with a strong background in continuum mechanics as applied to biomechanical problems (haemodynamics, soft tissues mechanics). A good practical knowledge of numerical methods is required, in particular finite elements. He/she should also have strong skills and passion for mathematical modelling, numerical approximation, comparison with experimental data and is expected to take a key role in collaboration with medical doctors. The positions are open until suitable candidates are found. Please indicate the specific theme you are interested in. If you have not yet officially obtained your PhD title, indicate the expected date. Duration: 1+1 years To apply send a CV to luca.formaggia@polimi.it ---------------------------------------------------- From: Claudine Chaouiya Date: Thu, Feb 4, 2010 at 2:09 PM Subject: Postdoctoral Positions: MALIN, IGC, Portugal The application to a Postdoc Fellowship is open under the Project called "MALIN: Modular modelling and Analysis of Large biological Interacting Networks" financed by Fundação para a Ciência e a Tecnologia. - Subject of Activities: The goal is to develop methods to model and analyse large regulatory networks. Based on a discrete modelling framework, we propose to define methods to decompose networks into relevant modules, as well as composition methods allowing to analyse networks from the properties of their modules. The candidate will participate to the computational implementations of the formal methods, which will be validated with a concrete study case: the regulatory processes underlying the dorsal appendage morphogenesis in the Drosophila egg. - Selecting Criteria: Preferably PhD in computational biology, but candidates with mathematics of computer science background, showing an interest in biology will also be considered. Programming skills and previous experience in modelling molecular networks are desirable. - Scientific Orientation: : Network modelling Group - Claudine Chaouiya. - Duration: The Fellowship will have the duration of 12 months, possible extension up to 36 months, possibly starting on 01.03.2010, in exclusiveness regime, as regulated by the human resources of FCT (http://www.fct.mctes.pt/pt/apoios/formacao/ambitoprojectos) and fellowships regulation of Instituto Gulbenkian de Ciência (http://www.igc.gulbenkian.pt). Application Documents: Curriculum Vitae, contacts of previous supervisors, and a Letter of Motivation should be sent by mail or e-mail to the following address: Claudine Chaouiya - Instituto Gulbenkian de Ciência Apartado 14 - 2781-901 OEIRAS Email: chaouiya@igc.gulbenkian.pt ---------------------------------------------------- From: Stanly Steinberg Date: Thu, Feb 4, 2010 at 8:39 PM Subject: Assistant Professor Position: Math & Stat, University of New Mexico The Department of Mathematics and Statistics at the University of New Mexico invites applications at the rank of Assistant Professor for a full-time, probationary position leading to a tenure decision. The department expects to hire a specialist in biomathematics or biostatistics for Fall, 2010. mathematics, biostatistics, systems biology or a related field with a strong mathematical or statistical emphasis. Go to http://math.unm.edu/jobs/faculty.html for more information. ---------------------------------------------------- From: "Owens, Roland (NIH/OD) [E]" Date: Tue, 2 Feb 2010 16:48:31 -0500 Resent-From: Raymond Mejia Subject: NIH Research Jobs - February Update Systems Biology/Bioinformatics Staff Scientist Neuro-Oncology Branch, NCI (deadline:  open-ended) The Neuro-Oncology Branch, a trans-institute program of the National Cancer Institute and the National Institute of Neurological Disorders and Stroke of the National Institutes of Health is seeking an outstanding candidate to work in the area of cancer genomics, bioinformatics and systems biology, particularly on computational modeling of signaling and gene networks in cancer cells. Ongoing projects include the integration of -omics and clinical data in the exploration of signaling and transcriptional networks that govern cell differentiation, proliferation and migration in primary brain tumors, cancer tumor stem cells and normal embryonic neural stem cells and the translation of those discoveries to patients through the highly integrated clinical brain tumor research program. Applicants should have a strong background in mathematical and computational modeling and be expected to carry out an interdisciplinary project with experimental groups. The Staff Scientist candidate will take a lead role in the mentorship and scientific management of a team of bioinformatics research fellows. The following skills and qualifications are required: 1) PhD in computer science, mathematics, bioinformatics, or related fields, and at least 3 years of post-doctoral training in bioinformatics and/or systems biology; 2) experience in machine learning and network generation algorithms; 3) basic knowledge of cell/molecular biology; 4) experience in genome-wide genetic and gene expression data analysis. Please send curriculum vitae, statement of research interests and two letters of reference to: Howard A. Fine, Chief; Neuro-Oncology Branch, National Cancer Institute; MSC 8200, Room 225; 9030 Old Georgetown Road; Bethesda, MD 20892-8200 or to smithj9@mail.nih.gov. Candidates may be U.S. citizens, resident aliens, or nonresident aliens. DHHS, NIH, the National Cancer Institute and the National Institute of Neurological Disorders and Stroke are Equal Employment Opportunity and Affirmative Action employers that value and foster diversity throughout the entire organization. Chief Laboratory of Computational Medicine, NEI (deadline:  open-ended) The NEI seeks to develop a new program in computational analysis that fully employs human genomic, transcriptomic, proteomic, metabolomic, neurophysiological and clinical data sets to reconstruct biological networks characteristic of normal and disease states.  The magnitude, diversity, rich information content, and hierarchical connectivity of these data sets require the utilization and development of novel quantitative tools. The goal is to understand human disease at a molecular level in order to develop mechanism-based therapeutic interventions.  We invite applications for head of a new laboratory of Computational Medicine within the NEI Intramural Research Program. This initiative seeks to integrate and translate knowledge from genetics and biology to a wide range of disease processes using systems, network, statistical and bioinformatics approaches. * Examples in ocular biology amenable to a systems approach would include neuro-immune interactions, gene regulatory networks during disease pathogenesis, protein interaction pathways, neuron-glial-vascular biological networks in the retina, neuronal networks in the CNS, and developmental conditions and disorders.  * The research program has interest in developing novel computational methodologies for analyzing large genetic, biological, biomedical, neuronal, and functional data sets. Particular attention will be paid to genotype-phenotype correlations, gene-gene and gene-environment interactions. In parallel, we will actively seek to develop disease intermediate phenotypes that reflect the underlying biology and pathophysiology of disease. * Data sets from large clinical trials, genetic studies (including GWAS), expression profiling in normal and disease conditions, and from the eyeGENE human research repository for monogenic ophthalmic diseases will be developed to reconstruct and understand ocular biological networks that link genetic perturbations, small molecule interactions, and physiological processes, to predict normal and disease states The NEI/NIH provides an exceptional environment of dedicated scientists as well as a wide range of resources.  We currently envision that this program will be located in the newly constructed Porter Neuroscience complex that houses a diverse set of investigators from many different Institutes. The successful candidate will be expected to recruit tenure-track faculty in areas that may include computational medicine or neuroscience, network biology, genetic or molecular epidemiology, cell and molecular biology, statistical genetics, bioinformatics, and biostatistics into the new Laboratory of Computational Medicine. Applicants should have a MD, MD/PhD or PhD and an outstanding record of accomplishments in genetics, epidemiology, neuroscience, cell and molecular biology, biostatistics, or a related quantitative discipline. Senior scientists would have the opportunity to maintain their participation in existing collaborative research in non-eye diseases if desired.  This position will remain open until filled. Applicants should submit curriculum vitae, bibliography, copies of their five most significant publications, a summary of research accomplishments, names of three references, and a detailed experimental plan for the development of this program. These materials should be sent to: The Office of the Scientific Director, National Eye Institute, Attention: Ms. Mica Gordon (gordonmi@nei.nih.gov), NIH Building 31, 31 Center Drive, Room 6A22, Bethesda, MD, 20892. The National Eye Institute does not discriminate in employment on the basis of race, color, religion, sex, national origin, political affiliation, sexual orientation, marital status, disability, age, membership in an employee organization, or other non-merit factor. DHHS and NIH are Equal Opportunity Employers. Link to Fellowships, Staff Scientist and Tenured/Tenure-Track Research Positions http://www.training.nih.gov/ Link to NIH Jobs http://www.jobs.nih.gov/ Searchable database of all NIH intramural research projects http://intramural.nih.gov/search/index.tml ---------------------------------------------------- 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 . 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 **************************************************** ----------------------------------------------------