Geno Ontology Analysis
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18 days ago
1961012 • 0

I did Gene ontology analysis of DEGs using R Bioconductor as following:

upBP_0.01= new("GOHyperGParams",
             geneIds=selectgenesup,
             universeGeneIds=universegenes,
             annotation="org.Pf.plasmo.db",
             ontology="BP",
             pvalueCutoff=0.01,
             conditional=FALSE,
             testDirection="over")

upBP = hyperGTest(upBP_0.01)

summary(upBP)

and i got the output:

enter image description here `

How can I get the list of genes in each GO term?

Is there any R script for this issue?

How can I visualize them if possible?

Thank you in advance!

GO hypergtest • 175 views
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You forgot to mention you are using the GOstats package.

You can use the mapIds() function from the AnnotationDbi package.

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