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3 hours ago by

Hello!

I am performing the GO/pathway analysis of my RNA-seq data using GSEA.
I have many DEGs, about 3000 in total, and I got many enriched pathways with both positive and negative NES.
However, all or most of the enriched pathways have an FDR > 0.05 and therefore are not classified as statistically significant.
Most of such enriched pathways are characterized by more than 30 DEGs, which is a reasonable number of differentially expressed genes associated with a certain pathway.

What could be the reason for that?

I would gladly appreciate any comment or suggestion and thanks in advance!

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modified 3 hours ago

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genomax80k

written
3 hours ago
by

marco0



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