Differentially expressed genes selection by several pipelines

Question

[Gum]

Hi!

Due to false positive rate, is it acceptable to use gene sets as DEGs (Differentially expressed genes) that are equally predicted by several pipelines?

Thank you.

[brunobsouzaa]

I don't see any problem with that. Personally, I like to combine Deseq2 and EdgeR results as a start point. But keep in mind that you may have true calls alone in some pipelines!

[Gum]

Thank you very much! I'll try that!

P.S. Enrichment analysis was improved! Thank you again!