Pathway Annotation for variants Exome Data

Question

[steven.blanchard]

Hello,

I have exome results and I would have liked to detect the pathway with the most mutations. Do you know any software that can do this analysis? Ideally from VCF file or text and For unique exome and for cohort.

Thanks,

Steven

[ivivek_ngs]

This link should suffice provided your question of interest as of now is pathway analysis from vcf file. I still do not really approve of the pathway analysis from exome data but that link has several inputs as to how to formulate the query as well if it at this point your goal is a bit blurry and also exploratory.

Answer 1

[Hussain Ather]

Check out DAVID, Reactome, iPathwayGuide

Answer 2

[Leite]

You can try http://amp.pharm.mssm.edu/Enrichr/