SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
COG ID to COG categories SDPA_Pet Bioinformatics 0 09-18-2013 08:34 AM
igvtools window functions mbk0asis Bioinformatics 0 06-13-2013 08:54 PM
COG database pcs_murali Bioinformatics 1 01-31-2013 08:54 AM
List of all COGs/KOs/gene functions leknif Bioinformatics 0 06-15-2011 03:27 AM
Forum functions may break temporarily...combating spam. ECO Site Announcements 1 02-13-2010 09:25 AM

Reply
 
Thread Tools
Old 11-02-2013, 09:49 AM   #1
SDPA_Pet
Senior Member
 
Location: US

Join Date: Apr 2013
Posts: 222
Default COG functions to categories

Hi, I have a COG (Clusters of Orthologous Group) function lists and I want to know which COG categories these functions belong to?

Does anyone know any websites where I can do search?

Thanks.
SDPA_Pet is offline   Reply With Quote
Old 11-02-2013, 04:02 PM   #2
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 7,060
Default

Not sure exactly what you are asking. But this should answer a different post you have from a few days ago.

This file appears to have the mappings of COG ID's to functions: ftp://ftp.ncbi.nih.gov/pub/wolf/COGs/COG0303/cogs.csv

A list of the major COG categories is at this link: http://ecoliwiki.net/colipedia/index...ups_%28COGs%29

Last edited by GenoMax; 11-02-2013 at 04:06 PM.
GenoMax is offline   Reply With Quote
Old 11-02-2013, 05:19 PM   #3
SDPA_Pet
Senior Member
 
Location: US

Join Date: Apr 2013
Posts: 222
Default

Thank you, the csv file is what I want.
SDPA_Pet is offline   Reply With Quote
Old 11-08-2013, 07:18 PM   #4
SDPA_Pet
Senior Member
 
Location: US

Join Date: Apr 2013
Posts: 222
Default

BTW, GenoMax, do you know is there any website that I can find detailed introduction for each COG function.

For example, if I am interested in COG 001, I want know some details. What is the detailed function? What kind of enzyme?
SDPA_Pet is offline   Reply With Quote
Old 11-10-2013, 04:03 AM   #5
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 7,060
Default

Quote:
Originally Posted by SDPA_Pet View Post
BTW, GenoMax, do you know is there any website that I can find detailed introduction for each COG function.

For example, if I am interested in COG 001, I want know some details. What is the detailed function? What kind of enzyme?
Try this: ftp://ftp.ncbi.nih.gov/pub/wolf/COGs...3/listcogs.txt
GenoMax is offline   Reply With Quote
Old 02-21-2014, 11:57 PM   #6
shivam
Junior Member
 
Location: INDIA

Join Date: Sep 2013
Posts: 6
Default

Hi All;
Presently I am having the unigene sequences and I want to run COG but through command line I am not able to do this because I am confused how to prepared data base, so please help me to solve this problum.

Thanks
__________________
Joseph
shivam is offline   Reply With Quote
Old 02-22-2014, 12:00 AM   #7
shivam
Junior Member
 
Location: INDIA

Join Date: Sep 2013
Posts: 6
Default Preparation of COG library

Hi All;
Presently I am having the unigene sequences and I want to run COG but through command line I am not able to do this because I am confused how to prepared data base, so please help me to solve this problum.

Thanks
__________________
Joseph
shivam is offline   Reply With Quote
Old 02-22-2014, 07:13 AM   #8
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 7,060
Default

Quote:
Originally Posted by shivam View Post
Hi All;
Presently I am having the unigene sequences and I want to run COG but through command line I am not able to do this because I am confused how to prepared data base, so please help me to solve this problum.

Thanks
COG Software is here: ftp://ftp.ncbi.nih.gov/pub/wolf/COGs/COGsoft/
References for the COG software and relevant publications: http://www.ncbi.nlm.nih.gov/COG/
GenoMax is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 04:57 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO