This proposed session is intended to be a continuing forum for addressing the advances and needs of computational tools for managing genomic and pathway information, including metabolic pathways, signal-transduction pathways, genetic regulatory circuits, protein-protein interactions, and other types of biological interactions. A key interest is how to relate system-theoretic methods with our current gene/protein-centric approaches, and what kinds of applications are possible with such models. The previous two Genome, Pathway and Interactions Bioinformatics sessions, held at PSB2001 and PSB2002, demonstrated the growing interest in this important area of bioinformatics.
Genomics has revolutionized biomedical research with the ongoing determination
of the nucleic-acid sequences of many organisms. However, such information
is not an end in itself but provides the foundation for understanding the
biological characteristics of an organism. This session is concerned
with methods for inferring, representing, and analyzing global models of
the biochemical network of an organism from genomic data. Techniques
for computational analysis of biological pathways have been evolving due
to contributions from many disciplines, including biochemistry, chemical
engineering, developmental biology, artificial intelligence, simulation,
and control theory. We seek descriptions of new computational methods,
or applications of those methods to challenging biological problems.
Issues relevant to this session include:
In short, the session will address the issues of modeling, data
representation, simulation and integration/display of multiple kinds of
biological data in the genomic/metabolic domain.
Molecular modeling of protein interactions is outside the scope of this session.
Scientists who wish to participate in the session, but who do not wish
to submit a full paper, are welcome to submit a two page abstract, which
will be distributed at the meeting separately from the archival proceedings.
All participants are welcome to display posters and give live computer
demonstrations.
All PSB paper submissions must be submitted electronically via email
to Russ Altman
(russ.altman@stanford.edu) on or before July 15, 2002.
We accept pdf and Microsoft Word format files. We can NOT accept Tex files or other word processors. Please follow the paper formatting instructions available at:
http://www.smi.stanford.edu/projects/helix/psb-online/psb-submit/
Please note that all submissions must be accompanied by an (email) cover
letter that specifies by which specific session (if any) the paper should
be reviewed. Please also include a statement in the cover letter
that the paper that contains original unpublished results not currently
under consideration elsewhere and that all co-authors concur with its contents.
Eric Neumann
Beyond Genomics
ENeumann@BeyondGenomics.com
Alexander Hartemink
Department of Computer Science
Center for Bioinformatics and Computational Biology
Duke University
amink@cs.duke.edu
Pedro Romero
Bioinformatics Research Group
SRI International.
promero@ai.sri.com