MONDAY, April 08: "Molecular & Intracellular Level" 08:00 - 08:45 Breakfast & Registration 09:00 - 09:05 Welcome and Greeting: Fred S. Roberts, DIMACS Director 09:05 - 09:15 Welcome and Greeting from Workshop Organizers: Thomas Deisboeck, Harvard Medical School Lee Segel, Weizmann Institute Eduardo Sontag, Rutgers University Raimond Winslow, The Johns Hopkins University 09:15 - 10:15 Keynote address: Integrative Systems Biology: Genomics, Proteomics, and Computation L. Hood, Institute for Systems Biology 10:15 - 10:45 Coffee Break 10:45 - 11:30 Linking Genomics to Function via Metabolic Phenotyping G. Stephanopoulos, Massachusetts Institute of Technology 11:30 - 12:15 Designer Gene Networks J. Collins, Boston University 12:15 - 01:45 Lunch 01:45 - 02:30 The Architecture of Complexity: From the Topology of the World Wide Web to the Cell's Protein and Metabolic Network A.-L. Barabasi, University of Notre Dame 02:30 - 03:15 NIH Funding at the Interface J. Cassatt, NIH (NIGMS) 03:15 - 03:45 Coffee Break 03:45 - 04:15 Contributed Talk Genetic Regulatory Network Simulations for Data Analysis D. Zak, University of Delaware 04:15 - 04:45 Contributed Talk Structure Identification of Biochemical Systems with Genetic Algorithms E. Voit, Medical University of South Carolina 04:45 - 05:30 Poster Session 05:30 - 06:30 Wine and Cheese Reception TUESDAY, April 09: "Intercellular Level" 08:00 - 08:30 Breakfast & Registration 08:30 - 09:15 Modeling Spontaneous Rhythms in Developing Spinal Cord J. Rinzel, New York University 09:15 - 10:00 Modeling Cell Communication in Drosophila Oogenesis S. Shvartsman, Princeton University 10:00 - 10:30 Coffee Break 10:30 - 11:15 Structural Complexity and Cellular Information Processing in Living Cells D. Ingber, Harvard Medical School 11:15 - 12:00 DIMACS - Celera Genomics/Applied Biosystems Graduate Student Award Presentation and Lecture Structure of Gene Expression S. Rifkin, Yale University 12:00 - 01:30 Lunch 01:30 - 02:00 Contributed Talk Model-based Analysis of Regulatory Networks in Bacteria C. Conradi, Max Planck Institute for Dynamics of Complex Technical Systems 02:00 - 02:30 Contributed Talk Dynamic Interactions of cAMP Transients and Spontaneous Calcium Spikes Y. Gorbunova, UMDNJ-Robert Wood Johnson Medical School 02:30 - 03:00 Contributed Talk Establishing Direction During Chemotaxis in Eukaryotic Cells W.-J. Rappel, University of California 03:00 - 03:30 Coffee Break 03:30 - 04:00 Contributed Talk Analysis of a Model of Gradient Sensing in Dictyostelium and Neutrophils J. Krishnan, Johns Hopkins University 04:00 - 04:30 Contributed Talk Human SNPs, System Robustness, and Complex Disease Traits J. Moult, University of Maryland Biotechnology Institute 04:30 - 05:30 Poster Session WEDNESDAY, April 10: "Tissue- & Organ-System Level" 08:00 - 08:30 Breakfast & Registration 08:30 - 09:15 Distributed Feedbacks toward Multiple Conflicting Goals in the Immune System L. Segel, Weizmann Institute & Santa Fe Institute 09:15 - 10:00 Modeling T Lymphocyte Dynamics A. Perelson, Los Alamos National Laboratory 10:00 - 10:30 Coffee Break 10:30 - 11:15 An Integrative Model of the Cardiac Ventricular Myocyte Incorporating Local-Control of JSR Ca2+ Release R. Winslow, Johns Hopkins University 11:15 - 12:00 Nonlinear Dynamics, Chaos, and Complexity in Bedside Medicine A. Goldberger, Harvard Medical School 12:00 - 01:30 Lunch 01:30 - 02:15 Loss of Complexity with Aging: The Physiologic Basis of Frailty L. Lipsitz, Harvard Medical School 02:15 - 03:00 Modeling Malignant Brain Tumors as Complex Dynamic BioSystems T. Deisboeck, Harvard Medical School 03:00 - 03:30 Coffee Break 03:30 - 04:00 Contributed Talk A New Paradigm for B-Cell Activation and Tolerance G. Bhanot, IBM TJ Watson Research Center and Institute for Advanced Study 04:00 - 04:30 Contributed Talk Germinal Center Structure Evolution and Affinity Maturation S. Kleinstein, Princeton University 04:30 - 05:00 Contributed Talk Benign Cell Boosters: Exploring Novel Cancer Therapies Through Simulation C. Maley, Fred Hutchinson Cancer Research Center Invited Speakers L. Hood, Institute for Systems Biology G. Stephanopoulos, Massachusetts Institute of Technology J. Collins, Boston University A.-L. Barabasi, University of Notre Dame J. Cassatt, NIH (NIGMS) J. Rinzel, New York University S. Shvartsman, Princeton University D. Ingber, Harvard Medical School S. Rifkin, Yale University L. Segel, Weizmann Institute & Santa Fe Institute A. Perelson, Los Alamos National Laboratory R. Winslow, Johns Hopkins University A. Goldberger, Harvard Medical School L. Lipsitz, Harvard Medical School T. Deisboeck, Harvard Medical School Posters Christian S. Parry and Lawrence J. Stern, Massachusetts Institute of Technology Crystallographic and Computational Studies of a Class II MHC Complex with a Nonconforming Peptide: the Preliminary Structure of HLA-DRA/DRB3*0101 Myung Ho Kim, Ph.D, Chief Scientific Officer of Bioinformatics Frontier Inc. Pattern Recognition of Protein 2D Gel Image and its Application for Diagnosis of a Disease Leo Hellerman Representation of Living Forms by Information-Theoretic Functions of Integer Partitions. Hidirov Bahrom, Saidalieva Mahruy, Hidirova Mohiniso, Institute of Cybernetics, Academy of Sciences of Uzbekistan Object-oriented Modeling Of Regulatory Mechanisms Of Living System on molecular-genetic, cellular and tissue levels. Katarzyna Rejniak, Tulane University A computational model of the mechanism of growth of a trophoblast tissue. Gordana Apic, S.A. Teichmann, MRC Laboratory of Molecular Biology; and W. Huber, German Cancer Research Center Evolution of Multi-Domain Protein Families in Archaeal, Bacterial and Eukaryotic Proteomes. M. Madan Babu and Sarah Teichmann, MRC Laboratory of Molecular Biology Protein Families and Regulatory Patterns in the Transcription Factor Regulatory Network in E. coli Sui Huang and Donald E. Ingber, Harvard Medical School Gene network topology and dynamics in mammalian cell fate regulation Valentin A. Ilyin and Andrej Sali, The Rockefeller University ModView, a web application for visualization of multiple protein sequences and structures. David Harlan Wood, University of Delaware DNA Evolution Without Phenotypes T. Sauter, Eric Bullinger, F. Allgower and E.D. Gilles Hypothese Testing in Escherichia coli using Mathematical Modeling Sungchul Ji, Rutgers University; Ming Ouyang, and Panos Georgopoulos, UMDNJ-RWJ Medical School; Microarray Data Analysis based on the Bayesian Theorem and the Entropy Maximization Principle