Question: GO terms associated to a list of genes
2
gravatar for ncl.lazzarini
5.6 years ago by
ncl.lazzarini100
United Kingdom
ncl.lazzarini100 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 • 3.3k views
ADD COMMENTlink modified 5 months ago by 11464572360 • written 5.6 years ago by ncl.lazzarini100
1
gravatar for Emily_Ensembl
5.6 years ago by
Emily_Ensembl20k
EMBL-EBI
Emily_Ensembl20k 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 5.6 years ago by Emily_Ensembl20k
0
gravatar for 1146457236
5 months ago by
11464572360
11464572360 wrote:

Have you resolved your question?

ADD COMMENTlink written 5 months ago by 11464572360

This tool will give you the terms for all your genes in the list. Additionally it will also provide enrichment analysis.

Gene Set Clustering based on Functional annotation (GeneSCF)

ADD REPLYlink written 5 months ago by EagleEye6.6k
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