Question: RPS Blast, COG and KOG analysis
2
gravatar for Adrian Pelin
4.0 years ago by
Adrian Pelin2.2k
Canada
Adrian Pelin2.2k wrote:

Hello,

Is there a tutorial somewhere in setting up your own RPS BLAST database and finding KOG and COGs in a given proteome?

The only way I know how to do it is through http://weizhong-lab.ucsd.edu/metagenomic-analysis/server/kog/ an online server with a 2011 rpsblast database. Is RPS BLAST obsolete now? Is there something that replaced this sort of analysis?

Thanks,

Adrian

kog cog rpsblast • 4.5k views
ADD COMMENTlink modified 2.9 years ago by Shyam130 • written 4.0 years ago by Adrian Pelin2.2k

Found COG and KOG databases here: ftp://ftp.ncbi.nih.gov/pub/mmdb/cdd/little_endian/

According to this: ftp://ftp.ncbi.nih.gov/pub/COG/COG2014/data/Readme.201502.txt there was a recent COG database release in December 2014.

ADD REPLYlink written 4.0 years ago by Adrian Pelin2.2k

Hello I had a similar question concerning the KOG database. Did you ever figure out your answer? I want to search for genes in KOG database but can't convert gene IDs to match the ones in the KOG database and the Weizhong lab website is no longer accessible.

ADD REPLYlink written 2.3 years ago by mubangafchama10
0
gravatar for Shyam
2.9 years ago by
Shyam130
United States
Shyam130 wrote:

Hi Adrian:

"Found COG and KOG databases here: ftp://ftp.ncbi.nih.gov/pub/mmdb/cdd/little_endian/"

Are these the updated KOGs. I didnt find any updates for the KOGs in the COG db ftp site

ADD COMMENTlink written 2.9 years ago by Shyam130
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