[BioC] extracting interactions between members of the KEGG pathways

[Robert Gentleman]

There is some stuff done in the cMAP and pathRender packages, but this 
has not progressed that far, mostly due to a lack of resources

cMAP is a meta-data package which has information from both KEGG and 
BioCarta (original data from the NCI)

pathRender is in the development archive

best wishes
   Robert


Jane Fridlyand wrote:
> Hello,
> 
> I was wondering whether there is an infrastructure in one of the BioC
> packages to extract connections between members of the KEGG pathways. As
> far as I can tell KEGG package allows to get the identifiers of the
> members very easily, however I do not see a way of going one step further
> so to be able to produce a graph (where presence of each edge indicates
> known interaction or same compound )
> 
> Thank you. Any help /suggestion is greatly appreciated.
> 
> Jane
> 
> 
> 
> 
> 
> ********************************************************************************
> Jane Fridlyand, Assistant Professor
> Department of Epidemiology and Biostatistics
> Center for Bioinformatics and Molecular Biostatistics
> UCSF Comprehensive Cancer Center,
> Box 0128 San Francisco, CA 94143-0128
> Office: Room N224 Tel: (415)476-0168 Fax: (415)502-3179
> 
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-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org