Off topic:Is GSEA an over-representation method?
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4.0 years ago
dannyzimm ▴ 50

I'm a bit confused about gene set enrichment analysis:

In this review they classify GSEA as a "functional class scoring method (FCS)" (table 1) whereas in the book "The Biostar Handbook" literally says: "Gene set enrichment analysis can be performed in several ways. One of the most commonly used is approach is the over-representation analysis (ORA)" (page 241).

I understand that gene set enrichment analysis is a method to find over-represented genes from a previous-ranqued list (obtained by FCS). In other words, to make a gene set enrichment analysis you need a FCS + ORA, am I off track?.

Does the review i mentioned earlier refer to a software called GSEA that performs both analysis?

Thanks in advance!

functional analysis GSEA • 1.2k views
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