Question: GO terms associated to a list of genes
2
gravatar for ncl.lazzarini
4.7 years ago by
United Kingdom
ncl.lazzarini90 wrote:

I have a list of genes (HGCN ID, gene name). I need to get, for each gene, the list of GO terms (only the Biological Process terms) associated to it. I DON'T need an enrichment analysis but simply I need to get all the GO terms associated to each of the gene. I found this answer that suggests to use biomart: How Do I Do Simple Go Term Lookup Given A Gene (Or Mrna) Identifier?, unfortunately it doesn't work (it's 4 years old so biomart might have been changed). What would be the easies way to get all the GO terms? I'd prefer to create a script using python or R as I have many genes and do it manually for each of them is not worthy. Any suggestion?

ontology go biological process gene • 2.7k views
ADD COMMENTlink modified 4.7 years ago by Emily_Ensembl18k • written 4.7 years ago by ncl.lazzarini90
1
gravatar for Emily_Ensembl
4.7 years ago by
Emily_Ensembl18k
EMBL-EBI
Emily_Ensembl18k wrote:

You use BioMart. There's a help video here. Just filter by ID list limit, choosing HGNC name, then get GO terms are attributes.

ADD COMMENTlink written 4.7 years ago by Emily_Ensembl18k
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