Gene Ontology Database
1
0
Entering edit mode
4.3 years ago

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 • 1.8k views
ADD COMMENT
1
Entering edit mode

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

ADD REPLY
0
Entering edit mode

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

ADD REPLY
2
Entering edit mode
4.3 years ago
Shalu Jhanwar ▴ 540

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

ADD COMMENT

Login before adding your answer.

Traffic: 972 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6