| Sunday |
| 2:00-11:00pm | Arrival and Registration |
| 4:00-6:00pm | Reception |
| 6:00pm | Dinner |
| 7:30-9:40pm | Surveying Molecular Information in Cells |
| Discussion Leader: Jeffrey Thomas |
| 7:30pm | Welcome and Orientation |
| 7:40pm | Toni Kazic, Washington University, St. Louis
Understanding Biochemical Networks |
| 8:10pm | Discussion |
| 8:20pm | Neil Clarke, Johns Hopkins University
DNA Binding specificity in a genome sequence context: Understanding transcriptional regulation |
| 8:50pm | Discussion |
| 9:00pm | John Tyson, Virginia Tech
Modeling the Eukaryotic Cell Cycle: An Example of the 'Last Step' in Computational Molecular Biology |
| 9:30pm | Discussion |
| Monday |
| 7:30-8:30am | Breakfast |
| 8:30am | Conference Photo |
| 9:00am-12:30pm | Biophysics of Molecular Interaction |
| Discussion Leader: James Anderson |
| 9:00am | Peter Uetz, University of Washington
Protein interactions and prediction of protein function in yeast |
| 9:45am | Discussion |
| 10:00am | Coffee Break |
| 10:30am | Andrey Levchenko, Cal Tech
Scaffold and Adaptor Proteins in Signal Transduction: Helping to Decide Where, When and How Much |
| 11:15am | Discussion |
| 11:30am | Dagmar Ringe, Brandeis University
From Sequence to Function, How Easy Is It? |
| 12:15pm | Discussion |
| 12:30-1:30pm | Lunch |
| 4:00-6:00pm | Poster Session I |
| 6:00 | Dinner |
| 7:30-9:30pm | New Biological Insights from Primary Measurements |
| Discussion Leader: Andrey Rzhetsky |
| 7:30pm | Jeremy Nicholson, Imperial College of Medicine
Metabonomics, an Integrated Systems Approach to Understanding Metabolic Responses to Disease Processes and Gene Function |
| 8:15pm | Discussion |
| 8:30pm | Joerg Bernhardt, Institut für Mikrobiologie, Universität Greifswald
Accessing and analysing a bacterial proteome - Proteomics of Bacillus subtilis |
| 9:15pm | Discussion |
| Tuesday |
| 7:30-8:30am | Breakfast |
| 9:00am-12:30pm | Designing Data Relations for Optimal Understanding |
| Discussion Leader: Ruth VanBogelen |
| 9:00am | Brian Davis, Proteome, Inc.
From Information to Knowledge: Coupling curation technologies with data relations and presentation format for optimal understanding of protein functions and pathways. |
| 9:45am | Discussion |
| 10:00am | Coffee Break |
| 10:30am | Shankar Subramanian, UCSD
Designing knowledge bases for cellular signaling |
| 11:15am | Discussion |
| 11:30am | Pedro Romero, SRI International
The EcoCyc Database and the Pathway Tools Software. |
| 12:15pm | Discussion |
| 12:30-1:30pm | Lunch |
| 4:00-6:00pm | Poster Session II |
| 6:00 | Dinner |
| 7:30-9:30pm | Deduction of Biological Networks |
| Discussion Leader: Greg Stephanopoulos |
| 7:30pm | David Gifford, MIT
Principled Techniques for Genetic Regulatory Circuit Discovery. |
| 8:15pm | Discussion |
| 8:30pm | Trey Ideker, Univ Washington
Prediction of gene expression using integrated physical-interaction networks |
| 9:15pm | Discussion |
| Wednesday |
| 7:30-8:30am | Breakfast |
| 9:00am-12:30pm | Predictive Algorithms and Computational Methods |
| Discussion Leader: Shankar Subramanian |
| 9:00am | Kimmen Sjolander, Celera Genomics
High-throughput functional classification of proteins |
| 9:45am | Discussion |
| 10:00am | Coffee Break |
| 10:30am | Inna Dubchak, Lawrence Berkeley National Labs
Comparative Genomics Tools for Biological Discovery. |
| 11:15am | Discussion |
| 11:30am | Greg Stephanopoulos, MIT, Boston
Pattern discovery in DNA microarray data |
| 12:15pm | Discussion |
| 12:30-1:30pm | Lunch |
| 5:00-6:00pm | Business Meeting |
| 6:00 | Dinner |
| 7:30-9:30pm | Modeling Single Cells |
| Discussion Leader: Leslie Loew |
| 7:30pm | Adam Arkin, University of California, Berkeley
Convergent Behavior in Divergent Pathways: Comparative Signal Transduction in Bacteria |
| 8:15pm | Discussion |
| 8:30pm | Jose Vilar, Princeton University
Computational Molecular Biology: Networking with noise at the molecular, cellular, and population level. |
| 9:15pm | Discussion |
| Thursday |
| 7:30-8:30am | Breakfast |
| 9:00am-12:30pm | Spatial and Whole-Genome Modeling |
| Discussion Leader: Robert Stengel |
| 9:00am | Drew Endy, Molecular Sciences Institute, Berkeley
Models and Experiments for Bacteriophage T7 Development and Yeast Pheromone Signal Transduction |
| 9:45am | Discussion |
| 10:00am | Coffee Break |
| 10:30am | Masura Tomita, Keio University
E-CELL Project: Towards whole cell simulation |
| 11:15am | Discussion |
| 11:30am | Leslie Loew, University of Connecticut
The Virtual Cell: A software environment for cell biological modeling. |
| 12:15pm | Discussion |
| 12:30-1:30pm | Lunch |
| 4:00-6:00pm | Poster Session III |
| 6:00 | Dinner |
| 7:30-9:30pm | Cross-Scale Modeling |
| Discussion Leader: Adam Arkin |
| 7:30pm | TBA |
| Discussion |
| 8:30pm | Cynthia Stokes, Entellos, Inc.
Predictive model of asthma: from genes to physiology. |
| 9:15pm | Discussion |
| Friday |
| 7:30-8:30am | Breakfast |
