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Reveal GO Biological Process using biomaRt

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!

rna-seq r go biomart
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updated by Ram Ram • written by Anton Shekhov Anton Shekhov

1 answer

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.

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written by Emily Emily

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

• 0 views • link
written by Anton Shekhov Anton Shekhov

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