Gene Ontology for the species Malus domestica

Question

[sangi]

Hi all, I mapped my reads using STAR and have feature counts. In R, I am using edgeR, limma, and voom for differential expression analysis. I did TREAT and glmMD plot. I have the differential expression list based on Gene-ID. For gene set testing, I tried to use goana but I coudn't find my species Malus domestica. Can anyone help me on how to proceed with Gene Ontology?

[Pierre Lindenbaum]

tag1 , tag2 ? don't be lazy please.

Answer 1

[Marco Pannone]

https://www.gsea-msigdb.org/gsea/index.jsp Get your full gene list and a normalised reads count matrix with all the replicates of interest, then run GSEA.

[sangi]

Thank you.