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No Go Terms For Genes When Using The Gostat Package In Bioconductor

Hi can anybody plz help me regarding differential gene expression analysis i m using a dataset of affymetrix hgu133plus2 and carried out analysis using limma in r and other bioconductor package but when i tried doing gene set enrichment analysis using GOstats i am getting an error like

Error in getGoToEntrezMap_db(p) : 
    The genes you are testing do not have any corresponding GO terms for the ontology you are searching

Kindly give a solution.

differential gene expression limma
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written by shaikhfarahdeeba • shaikhfarahdeeba

2 answers

If you have a table of gene symbols from limma, I would just use one of the many web-based GO enrichment tools.

GATHER is probably my favorite: (and you can then easily do other types of functional enrichment)

http://gather.genome.duke.edu/

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written by Charles Warden Charles Warden

Thanx but is it necessary to convert the character vector in the numeric form .

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written by shaikhfarahdeeba • shaikhfarahdeeba

Please use comments for further questions; don't post as a new answer.

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written by Neilfws Neilfws

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