The tools in the gseaBase package are also pretty helpful for these kinds of problems. Florian On 06.04.2009, at 08:07, Daniel Brewer wrote: > 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. > > Dan > > 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. > > This e-mail message is confidential and for use by the a...{{dropped: > 2}} > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor