[InterMine Dev] biopax data visulization

Benjamin Hitz hitz at stanford.edu
Thu Mar 15 17:25:53 GMT 2012


Just interrupting here but:
1) pathways SHOULD be modeled as paths.
2) Although as graphs they have sub-graphs, essentially they are Graphs of BioMolecules ("Genes" but really proteins and/or RNAs... and can be expanded to DNA regulatory elements)  and Metabolites with Chemical Reactions as edges.

Ben

On Mar 14, 2012, at 7:46 PM, julie at flymine.org wrote:

> Currently pathways are not modeled as graphs, eg. pathways don't have
> parent/child pathways.  You could show the other genes on the gene of
> interest's pathways, and which pathways those genes share.  Is that what
> you were thinking?

--
Ben Hitz 
Senior Scientific Programmer ** Saccharomyces Genome Database ** GO Consortium
Stanford University ** hitz at stanford.edu







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