[BioC] KEGG analysis

Daniel Brewer daniel.brewer at icr.ac.uk
Mon Apr 6 17:07:48 CEST 2009

Just to answer my own question.  It seems that with a combination of the
 annotation libraries "org.Hs.eg" and "KEGG", and a bit of scripting you
can do this sort of thing.


Daniel Brewer wrote:
> Hello,
> I have two gene lists and I want to find out whether there are genes in
> list one that occur in well known networks (KEGG?) where genes in list 2
> also appear.
> For example,
> List 1: RAS, SPINK1
> List 2: ERBB2
> Both RAS and ERBB2 occur in ERBB signalling pathway defined by KEGG.
> SPINK1 does not appear in any common network (I think).
> Has anyone got any ideas what the best way to do this is?
> Many thanks
> Dan

Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
Email: daniel.brewer at icr.ac.uk

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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