Reveal GO Biological Process using biomaRt

Question

[Anton Shekhov]

Hello dear community,

I was wondering is it possible to get an access to the GO: Biological process for every gene name in transcriptome?

In more details: I have an Drosophila RNA-Seq data, which I analyzed by DESeq2. After that I wanted to cluster genes by their functions. For that I used biomaRt package, and for every gene I got an information like a description, GO term for molecular function, names in different databases and etc. Let's say I want to see all GSTs, which are should have Glutathione metabolic process as a biological process. How can I access this data?

Thanks!

Answer 1

[Emily]

You can use GO terms as a filter. BiomaRt is ontology aware, so you can filter by an ancestor term and get all the genes that are associated with the daughter terms too.

[Anton Shekhov]

Thanks! Did not realize that I omit all GO terms except the first one when connect two data frames.