Hi,

I am looking for a tool or R package that can take SNPs or DE genes with
their p-values and build a graphical representation showing possible
gene-gene interactions using prior knowledge from protein interactions
databases such as KEGG with some scores for the interaction. I know this
can be done in Ingenuity Pathway Analysis but I am looking for something
open-source.

I would appreciate if anyone knows anything like this.

Regards,
-- 
Yadav Sapkota
PhD Candidate
Dept. of Laboratory Medicine and Pathology, UofA
Cross Cancer Institute
11560 University Avenue, Edmonton AB T6G 1Z2
Phone: 780-5778092

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