Dear S.Deepak,

Have you tried geneRecommender?

Another approach is identify modules using WGCNA, and look for enrichment of your query gene set in the modules. 

Best regards,

Anthony 

-----Original Message-----
From: bioconductor-bounces@r-project.org on behalf of deepak [guest]
Sent: Tue 7/15/2014 7:03 PM
To: bioconductor@r-project.org; deepakkarthik02@gmail.com
Cc: genefilter Maintainer
Subject: [BioC] co-expressed genes
 
Hi,

     I have a set of normalized data from tcga. I would like to find out the co-expressed genes, with the set of genes of my interest. Can any one suggest a better way to find it.

with regards,
S.Deepak

 -- output of sessionInfo(): 

genefilter()

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