Question: Retrieve all compound ID, Description from a ko ID
0
gravatar for jkkim
4 months ago by
jkkim30
S.Korea
jkkim30 wrote:

Hello,

I am trying to get, reaction IDs, descriptions, compound IDs and their descriptions from ko IDs (e.g. K00163). I went through Biostars and KEGG rest APIs, but I can't find an answer.

For example, I have a K00163. My goal is ko:K00507 has R02222 (Reaction ID, description) has C00001(compound),C00007 (IDs, Definitions)
ko:K00507 has R12173 (Reaction ID, description) has C00999,C21072...(IDs, Definitions)

The kegg rest api doesn't have the chemical reaction info. I tried some other ways but can't find ways.

The url has some patterns.
https://www.genome.jp/dbget-bin/get_linkdb?-t+7+ko:K00163
https://www.genome.jp/dbget-bin/get_linkdb?-t+compound+rn:R02222

Maybe I could use some html parser and html libraries (like request) so request a ko ID html and parse it and then get reaction IDs html and parse it over and over again, but it doesn't seem a nice way.

Is there a nice way of doing it?
Thank you in advance.

kegg api rest • 186 views
ADD COMMENTlink modified 4 months ago • written 4 months ago by jkkim30
0
gravatar for Sej Modha
4 months ago by
Sej Modha4.1k
Glasgow, UK
Sej Modha4.1k wrote:

It is possible to download KEGG KO records in the flat file format using KEGG API and then parse the text file for any data.

For example, http://rest.kegg.jp/get/ko:K00507 and http://rest.kegg.jp/get/ko:K00163

ADD COMMENTlink modified 4 months ago • written 4 months ago by Sej Modha4.1k

Thank you. I tried that way before, but it doesn't have the chemical reaction information.

ADD REPLYlink modified 4 months ago • written 4 months ago by jkkim30

Please do not delete the post after members of the community have provided feedback on your post.

ADD REPLYlink written 4 months ago by Sej Modha4.1k

I am sorry. For some reason, I removed the post. Sorry again.

ADD REPLYlink written 4 months ago by jkkim30
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