what is the difference between gene set test analysis and gene set enrichment analysis?
2
3
Entering edit mode
6.3 years ago

what is the difference between gene set  test analysis and gene set enrichment analysis??

microarray analysis Forum • 5.4k views
ADD COMMENT
5
Entering edit mode
6.3 years ago
svlachavas ▴ 750

Dear Manasa,

basically although these terminologies are a bit arbitary and context depending, naively speaking: generally, consider that gene set enrichment analysis, which is basically functional/enrichment analysis, includes various gene set testing analysis methodologies, like overepresentation analysis, GSEA, etc. There are some very useful papers or tutorials which you can check:

(* also to mention, in some general descriptions, they have been used described the same thing and have the same interpretation)

Hope this helps,
Efstathios

ADD COMMENT
4
Entering edit mode
6.3 years ago

I am not sure it is the official definition, but in general I use:

  • gene set analysis: you have a list of genes (e.g. genes differentially expressed in case vs controls), and you want to know the terms enriched
  • gene set enrichment analysis (GSEA): instead of using only the genes that are differentially expressed, you use all the genes analysed, ranked by their expression ratio or by any ranking score, and you get a list of terms enriched in all genes weighting their ranks.
ADD COMMENT

Login before adding your answer.

Traffic: 1448 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6