From Fruitfly Kegg Entry To Ko Id

Question

[Dejian]

I have a long list of fruitfly KEGG entries. I and want to get their corresponding KO IDs. For example, the entry Dmel_CG17544 corresponds to K00232. Is there a quick way to finish this conversion? I guess there should be a file describing the relationship of fruitfly entries and KO IDs. If yes, where to get it? Many thanks! Happy 2012!

Answer 1

[Pierre Lindenbaum]

Use TogoWS

$ curl -s "http://togows.dbcls.jp/entry/genes/dme:Dmel_CG17544/orthologs"
K00232  acyl-CoA oxidase [EC:1.3.3.6]

Answer 2

[Nakao]

TogoWS provides a URL for the KEGG Orthology line in a KEGG Genes entry.

The URL of the KO Line of the KEGG/GENES Dmel_CG17544:

http://togows.dbcls.jp/entry/kegg-genes/dme:Dmel_CG17544/orthologs

and you obtain the KEGG Orthology line:

K00232  acyl-CoA oxidase [EC:1.3.3.6]

You can get KO IDs by the corresponding URLs generated from your list with (1) Galaxy, (2) Google Refine, (3) scripting, and so on.

[Pierre Lindenbaum]

@nakao it seems that we had the very same idea at the same time ! :-)

[Nakao]

New Year's greetings :-)

[Dejian]

Thank you, Pierre and nakao, for introducing me such a wonderful tool.