Question: annotation for a gene set enrichment analysis
0
gravatar for h.botond
3.1 years ago by
h.botond40
Hungary
h.botond40 wrote:

Dere everybody.

I want to do a gene set enrichment analysis. Therefore, in the firest step, I assigned my proteins into COG, NOG categories. But some proteins has multiple COG, NOG categories. Which I thing is normal.

The problem is that I don't know how to handle these proteins in the next step. I think when I will perform the gene set enrichment analysis they will form small groups which in the end will bias the result.

What should I do to avoid this?

Thank for every suggestion. 

functional annotation cog • 1.2k views
ADD COMMENTlink modified 3.1 years ago • written 3.1 years ago by h.botond40

Thank for the quick and useful response. I will check the program. Did you use before? Is it useful for bacterial RNA-Seq transcriptome analysis? 

ADD REPLYlink written 3.1 years ago by h.botond40
2
gravatar for Istvan Albert
3.1 years ago by
Istvan Albert ♦♦ 79k
University Park, USA
Istvan Albert ♦♦ 79k wrote:

Multifunctionality of proteins is very common and is a confounding factor as you suspect. Here is how ErmineJ deals with it

ADD COMMENTlink modified 6 months ago by RamRS20k • written 3.1 years ago by Istvan Albert ♦♦ 79k
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