Question: Pathways Enrichment analysis
gravatar for skjobs1234
13 months ago by
skjobs123420 wrote:

Dear All,

I have cluster wise list of genes varies from (4 to 8) numbers. Can I perform the pathway enrichment analysis in such small set of genes. If yes then, how can give the justification? Because less number of genes will give more false positive enrichment and false positive p-value too?

Can any one elaborate this problems?

gene • 219 views
ADD COMMENTlink modified 13 months ago by EagleEye6.6k • written 13 months ago by skjobs123420

I wrote an answer to a different question here that may be helpful in understanding GO enrichment.

As EagleEye said though, 4-8 genes isn't really sufficient for a statistical analysis, and most reviewers will harp on that.

ADD REPLYlink written 13 months ago by jared.andrews076.4k
gravatar for EagleEye
13 months ago by
EagleEye6.6k wrote:

This is far too less number for performing enrichment analysis. If it is just 4 to 8 genes, why not provide detailed list of pathways each individual genes are involved rather than performing statistics (enrichment analysis). And 4 to 8 genes means you already narrowed down your genes and there is no point in doing statistics over those narrowed candidates.

ADD COMMENTlink written 13 months ago by EagleEye6.6k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1411 users visited in the last hour