gene ontology enrichment analysis

Question

[heba.m.elseedy]

Hello, i did RNA seq for Mouse but i am trying to do gene ontology enrichment analysis so which software or website i can use for that ? because i tried several programs and when i put 19 genes i have just for 14 genes so if it is possible to indicate which software is recommened

Thanks in advance

Answer 1

[Antonio R. Franco]

Almost any program or service will do, like GO ontology But.. the problem you are facing is that the statistical power you have to run an enrichment with the GO terms included in only 19 genes could be not enough

Answer 2

[dsull]

My favorite tool for GO analysis is EnrichR:

https://amp.pharm.mssm.edu/Enrichr/

It's up-to-date, well-maintained, and gives you comprehensive enrichment results (it will perform enrichment across a variety of databases: GO, KEGG, Wikipathways, and much much more).

In fact, I've encountered peer reviews recommending EnrichR and arguing that using certain other GO programs by themselves may not be sufficient.

[Antonio R. Franco]

Notice that the EnrichR example file you can load from that page contains 1000 genes... I emphasize that a GO enrichment with such a poor number of genes (19) is unlikely to be performed