Question: Tool to extract COG information/description
0
gravatar for allerdrengen55
11 months ago by
allerdrengen5520 wrote:

I have list of different COG numbers, and would like to retrieve a list of the COG numbers, with their corresponding function. Is there a tool for this?ยจ

The COG numbers look like this (always 4 digits): COG:COG1132

cog • 437 views
ADD COMMENTlink modified 11 months ago • written 11 months ago by allerdrengen5520
3
gravatar for Mensur Dlakic
11 months ago by
Mensur Dlakic6.9k
USA
Mensur Dlakic6.9k wrote:

This tab-delimited file has what you want.

Here is general hyperlink pattern for COGs:

http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=COG0001

By inserting your COG number instead of COG0001 you will get more detailed info.

ADD COMMENTlink written 11 months ago by Mensur Dlakic6.9k

Hi Mensur! That's exactly what I was looking for. I suppose a small script could easily fetch the right COGs from it. The A-Z letters are a very general categorization, right?

ADD REPLYlink modified 11 months ago • written 11 months ago by allerdrengen5520

The letters are functional categories of COGs. Their meaning is described here.

ADD REPLYlink modified 11 months ago • written 11 months ago by Mensur Dlakic6.9k

I just realized, that some COGs have multiple letters. Is that because the gene harbors both categories or because it doesn't know where to put it?

ADD REPLYlink written 11 months ago by allerdrengen5520

It is because many proteins are multi-functional.

ADD REPLYlink written 11 months ago by Mensur Dlakic6.9k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 985 users visited in the last hour