This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Gene Ontology Database

Hi everyone,

I am trying to build a web application. GO term is almost a standard step in the bioinformatic pipeline and I certainly want to include this in my application. I can easily download the GO term file here called go-basic.obo (very small, ~30 Mb). This is a plain text file, but what I really want is a SQL (MySQL, SQLite..) database. I don't want to build a database from scratch and I am sure there are some high-quality pre-built databases around there. Can anyone suggest a link where I can download the GO term database?

Note: It seems quickGO has API, but I really want the whole database...

Much appreciated.

gene gene ontology database
• 2,955 views • link
updated by Shalu Jhanwar Shalu Jhanwar • written by jason.taotaotan • jason.taotaotan

You can have a look into GO.DB r package.

• 0 views • link
written by Chirag Parsania Chirag Parsania

Thanks, that's very helpful. I found a prebuilt nice SQLite database in this R library.

• 0 views • link
written by jason.taotaotan • jason.taotaotan

1 answer

Have a look at the gene ontology site that allows downloading of GO database in several formats.

• 0 views • link
written by Shalu Jhanwar Shalu Jhanwar

Log in to answer this question.

More posts like this