GO Term analysis
0
1
Entering edit mode
8 weeks ago

I have ~450 genomic regions of 250kb each in hg38.

I wanted to do GO term analysis of genes in these regions.

In python, I used gencode.v38.basic.annotation.gff3.gz filtered on feature='gene'. I get ~30000 genes.

Using Panther Classification System, I get ~8000 hits.

If I use the UCSC genome browser, with track NCBI Refseq track and Refseq(all) table, I get only ~1800 genes.

What is the best way to extract genes for GO term analysis?

GO • 121 views
ADD COMMENT

Login before adding your answer.

Traffic: 2267 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