Meeting Notes

Draft version


Presentations

January 20, 2005 Pre-meeting

• Overview of Level 1
• Level 2 Introduction: Representing Molecular Interactions
• Level 2 Issue: Experiment Evidence
• Level 2 Issue: Sequence Features

January 21, 2005 Main Meeting

• Participant Introduction Slides
• BioPAX Survey Results
• Level 3 Issue: Hierarchical Pathways
• Level 3 Issue: Pathway Input and Output
• Level 3 Issue: State Representation
• Level 3 Issue: Gene Regulation
• Potential Level 4 Issue: Generic entities
• Potential Level 4 Issue: Genetic interactions

Supplementary Presentations

• Cell Models
• Types vs. Subclasses
• Levels of Detail
• Use case summaries

Participants

Name	Organization	Project
Mirit Aladjem	NCI	eMIM
Gary Bader	MSKCC	BioPAX
Michael Cary	MSKCC	BioPAX
Kam Dahlquist	Vassar College	GenMapp
Emek Demir	Bilkent University	PATIKA
Peter D'Eustachio	NYU	Reactome
Ken Fukuda	CBRC	INOH
Frank Gibbons	Harvard University	BioGraphNet
Marc Gillespie	Cold Spring Harbor Lab	Reactome
Michael Hucka	Caltech	SBML
Geeta Joshi-Tope	Cold Spring Harbor Lab	Reactome
David Kane	NCI	eMIM
Christian Lemer	Universit Libre de Bruxelles	aMAZE
Joanne Luciano	Biopathways Consortium	BioPAX
Suzanne Paley	SRI	BioCyc
Elgar Pichler	AstraZeneca	OntoSieve
Jonathan Rees	Millennium	PARIS
Andrey Rzhetsky	Columbia University	GeneWays
Chris Sander	MSKCC	BioPAX
Andrea Splendiani	Universit di Milano Bicocca	GCA
Mustafa Syed	Argonne National Lab	WIT/PUMA2
Edgar Wingender	BIOBASE	BIOBASE
Guanming Wu	Cold Spring Harbor Lab	Reactome
Jeremy Zucker	Dana Farber	BioPAX

Pictures

Mike Hucka's meeting photos

Funding for this meeting was provided in part by a U.S. Department of Energy Workshop Grant