7th BioPathways Meeting

June 23rd - 24th, 2005 – Detroit, Michigan USA

  

 

 

Day 1: June 23

 
9:00 - 9:15 Vincent Schachter Opening Remarks
 

Session 1: Metabolic networks
9:15 - 9:35 Peter Karp The BioCyc Collection of 160 Pathway/Genome Databases
9:35 - 9:55 Masanori Arita Atomic Reconstruction of Metabolism
10:00 - 10:30 Coffee Break  
10:30 - 11:05 Daniel Segre Optimality and modularity in metabolic networks
11:05 - 11:40 Gal Chechik Filling missing components in yeast metabolic pathways using heterogeneous data
11:40 - 12:00 Christian Forst Biological Network Analysis by a Network Proteomics Approach and Subcellular Protein Profiling
 

Session 2: SIGSIM

    
1:00 - 1:45 Ayako Kinoshita Metabolomics of red blood cell and its computer simulation
1:45 - 2:30 Michael Wise A Discrete-Event Simulator of Metabolic Networks - Bottom Up Systems Biology
2:30 - 3:00 Coffee Break  
3:00 - 3:45 Galina Lebedeva  Simultaneous modelling of genetic and metabolic networks
3:45 - 4:30  Jason Papin From intracellular signaling networks to multicellular function
4:30 - 5:30 Round Table Discussion: Metabolic networks modeling and analysis
 

 
Day 2: June 24 
 

Session 1: Gene regulation 
9:00 - 9:40 Alon Kaufman  Obtaining a Functional Pathway Description from Multi-Knockout Data
9:40 - 10:00 Anshul Kundaje Regulatory motif discovery through predictive modeling of gene regulation
10:00 - 10:30 Coffee Break  
10:30 - 11:05 Debora Marks TBA
11:05-11:40 Ulrik de Lichtenberg Dynamics of the yeast cell cycle interactome - modeling through integration of high-throughput data
11:40-12:00 Andrej Bugrim “Network signatures” as classifiers of disease phenotypes and drug response
 

Session 2: Protein-protein interactions 
1:00 - 1:40 Haidong Wang Identifying Protein-Protein Interaction Sites on a Genome-Wide Scale
1:40 - 2:00 Doron Betel Identification of Domain Binding Profiles From Diverse Protein Interaction Data
2:00 - 2:20 Vladimir A. Kuznetsov Proteome complexity measures based on counting of domain-to-protein links for replicative and non-repeplicative domains
2:20 - 2:40 Natasa Przulj Uncovering Structure in Protein-Protein Interaction Networks
2:40 - 3:00 Coffee Break 
 

Session 3: Tools 

    
3:00 - 3:20 Eric Mjolsness The Sigmoid Biological Pathway Modeling System
3:20 - 3:40  Frank Schacherer From interactions to pathways - getting the bigger picture
3:40 - 4:00 Joe Mellor Networks, Pathways and Modules in VisANT
4:00 - 4:20 Gary Bader BioPAX - Biological Pathway Data Exchange Format
4:20 - 4:40 U. Dogrusoz PATIKAweb: A Web-based tool for querying and visualizing PATIKA database integrating pathway data from various popular databases
4:40 - 6:00 Round Table Discussion : Pathways Information Resources