GSEA analysis and pathway mapping

Question

[ps1212]

Hi,

I have a set of DE genes from a GSEA. I would like to know how to map the genes to pathways in R? This is from Limma's pipeline output. I also have a set of normalized gene counts. How do I make sense of this table to map genes to specific pathways?

[h.mon]

What do you mean by "map genes to specific pathways"?

[ps1212]

Im trying to figure out which genes are part of a certain KEGG pathway.

[EagleEye]

Gene Set Clustering based on Functional annotation (GeneSCF)

Answer 1

[liux.bio]

You can use EnrichMiner. It performs GSEA analysis and highlights genes on KEGG pathway map according to expression values.