This special focus is jointly sponsored by the Center for Discrete Mathematics and Theoretical Computer Science (DIMACS), the Biological, Mathematical, and Physical Sciences Interfaces Institute for Quantitative Biology (BioMaPS), and the Rutgers Center for Molecular Biophysics and Biophysical Chemistry (MB Center).
Wednesday, May 3, 2006 8:15 - 9:00 Breakfast and Registration 9:00 - 9:15 Introduction and Welcoming Remarks Brenda Latka, DIMACS Associate Director 9:15 - 10:00 Quality and effectiveness of protein structure models Anna Tramontano, University of Rome "La Sapienza" 10:00 - 10:45 Analyzing and interrogating protein interaction maps using network schemas Mona Singh, Princeton University 10:45 - 11:15 Break 11:15 - 12:00 Unifying measures of gene function and evolution Eugene Koonin, National Center for Biotechnology Information 12:00 - 1:15 Lunch 1:15 - 2:00 Exploiting Structural and Comparative Genomics to Reveal Protein Functions Christine Orengo, University College London 2:00 - 2:45 Protein cores and loops: important clues to protein structure and function evolution Anna Panchenko, National Center for Biotechnology Information, NIH 2:45 - 3:15 Break 3:15 - 4:00 Modeling the dynamics and function of cellular interaction networks Reka Albert, Pennsylvania State University 4:00 - 4:45 Assigning protein function from sequence and from structure Bill Stafford Noble, University of Washington 5:00 Cocktails and poster session
Thursday, May 4, 2006 8:15 - 9:00 Breakfast and Registration 9:00 - 9:45 Analysis of schematic representations of protein folding patterns Arthur M. Lesk, Penn State University 9:45 - 10:30 Towards uncovering dynamics of protein interaction networks Teresa Przytycka, NCBI, NLM, and NIH 10:30 - 11:00 Break 11:00 - 11:45 Known function to new proteins and new function to known proteins: The case of toxin-like proteins Michal Linial, The Hebrew University, Israel 11:45 - 12:30 Where in the structure is protein function encoded? Leonid Mirny, MIT 12:30 - 1:45 Lunch 1:45 - 2:30 Remote Homology Inference: What are the limits? Nick Grishin, University of Texas Southwestern Medical Center 2:30 - 3:15 Ab initio predictions of transcription factor binding Joel Bader, Johns Hopkins University 3:15 - 3:45 Break 3:45 - 4:30 Deconstructing Multi-domain Homology Dannie Durand,Carnegie Mellon University 4:30 - 5:15 Structural phylogenomic inference of protein function Kimmen Sjölander, University of California, Berkeley Speaker's dinner Friday, May 5, 2006 8:15 - 9:00 Breakfast and Registration 9:00 - 9:45 Protein Subfamily Classification Methods for NCBI's Conserved Domain Database Stephen Bryant, NCBI, National Institutes of Health 9:45 - 10:30 Evolution teaches protein function prediction Burkhard Rost, Columbia University 10:30 - 11:00 Break 11:00 - 11:45 A structure-centric view on adaptation, evolution of protein structure and function Eugene Shakhnovich, Harvard University 11:45 - 1:00 Lunch 1:00 - 1:45 Predicting protein function and interactions on a whole-genome scale Olga Troyanskaya, Princeton University 1:45 - 2:30 Understanding Protein Function on a Genome-scale using Network Mark Gerstein, Yale University 2:30 - 3:00 Break 3:00 - 3:45 DIMACS - Celera Genomics/Applied Biosystems Graduate Student Award Presentation and Lecture Evolution of Protein Domain Architectures Jessica Fong, NCBI, NIH 3:45 - 4:30 Towards the prediction of residues involved in the folding nucleus of proteins Jacques Chomilier, University of Paris