DIMACS Workshop on Complexity in Biosystems: Innovative Approaches at the Interface of Experimental and Computational Modeling

April 8 - 10, 2002
DIMACS Center, CoRE Building, Rutgers University, Piscataway, NJ

Organizers:
Thomas Deisboeck, Harvard Medical School, deisboec@helix.mgh.harvard.edu
Lee Segel, Weizmann Institute, lee@wisdom.weizmann.ac.il
Eduardo Sontag, Rutgers University, sontag@gauss.rutgers.edu
Raimond Winslow, The Johns Hopkins University, rwinslow@bme.jhu.edu
Presented under the auspices of the Special Fodus on Computational Molecular Biology.

Workshop Program:


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



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Document last modified on March 13, 2003.