Hello,
Here is a quick [s]stupid[/s] question:
I just want to classify my list of genes with respect to GO terms (how many genes fall into each GO term) without doing enrichment analysis. Is there a web tool that is doing this?
Thank you!
You can find the same with Gorilla, since it provides all the metrics for the genes that are enriched in each GO terms and also gives an enrichment score. Obviously the best way to analyze is to put two unranked list , one for you target genes and another the background you would like to chose. Like the genes that are all expressed for your data rather than putting all genes in Homo Sapiens.
You could try web Gestalt.
You can use EnrichR for this.
https://amp.pharm.mssm.edu/Enrichr/
If you download the GO results, you'll see not only how many genes but also a list of every gene (from your gene list) that falls under a specific GO term.
(Edit: Sorry I didn't realize this was an old thread. It somehow was bumped up to the front page.)
Hi, you can try ENSEMBLE biomart. 1. Go to -> https://www.ensembl.org/biomart/martview/910b8e505dd410c87f1045df41b27ff0
Select database human hg38
Go to filter and click on gene and paster your gene list.
Go to attribute and then feature and in feature select external, you will get gene ontology Menu, now you can select whatever information you require, and click ok Result.
You will get all the ontology terms associated with your gene.
QuickGO is also an easy to use and useful tool
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version 2.3.6
This one does not recognize all human genes:
Unique Genes: 114; Annotated Genes: 80; GOs: 619; Unique GOs: 325; All Unique Sub-GOs: 906; GO-DB: goa_human.
Not all genes are GO annotated.
Just a suggestion. You many try blast2GO if you want to annotate GO for missing genes. Disclaimer: I have not used it before.