Question: Pathways Enrichment analysis
0
gravatar for skjobs1234
11 weeks ago by
skjobs123410
skjobs123410 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 • 107 views
ADD COMMENTlink modified 11 weeks ago by EagleEye6.4k • written 11 weeks ago by skjobs123410

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 11 weeks ago by jared.andrews073.1k
0
gravatar for EagleEye
11 weeks ago by
EagleEye6.4k
Sweden
EagleEye6.4k 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 11 weeks ago by EagleEye6.4k
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