How to convert gene names to GO term?
0
0
Entering edit mode
2.8 years ago
dpc ▴ 240

I have a list of bacterial gene names like this:

fau
folA
folM
lpd
gcvP
gcvH
gcvT
thyA
glyA
folD
folD
metF
metH

Now, I want to get the corresponding GO terms of each of these genes. How can I get that? Can anyone please help me?

Thanks, dpc

databse • 1.3k views
ADD COMMENT
0
Entering edit mode

Geneontology can assist you but you have to know the organisation name here. DAVID is also a good option.

Previous answers: gene GO ID

Command line: Gene Set Clustering based on Functional annotation (GeneSCF)

ADD REPLY
0
Entering edit mode

Thanks MSRS for your reply. But, my gene list comes from metagenome. I cannot specifically tell from which orgaism it is coming. What to do in such case?

ADD REPLY
0
Entering edit mode

Why don't you try MG-RAST for metagenome functional analyses!

Please accept the answer if you find it helpful.

ADD REPLY
0
Entering edit mode

Look MSRS, actually in metagenome a gene comes from a number of different organism. SO, even if I use MGRAST, it will not help me. ALso, I don't have fastq sequences in my hand so that I can run MGRAST.

ADD REPLY
0
Entering edit mode

How did you find these gene list?

ADD REPLY
0
Entering edit mode

Hi MSRS, I got this from MetaCyc database. Anyway, Is it possible to somehow get the KO IDs from this list of genes?

ADD REPLY

Login before adding your answer.

Traffic: 1953 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