This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Request compound name from KEGG Database

Dear all, i would like to extract the name compound related to the KEGG Database entry, for example if i have C00880, i will have as a output the name "D-Galactonic acid" or "D-Galactonate". Is there any library in python that can make this kind of request of something ?

Thanks.

pathway kegg compound
• 1,727 views • link
updated by AK AK • written by dnnxl15 • dnnxl15

1 answer

Hi dnnxl15,

You can use the KEGG API to query for it:

$ curl -s "http://rest.kegg.jp/find/cpd/C00880"
cpd:C00880  D-Galactonate; D-Galactonic acid

Or first get the full list of compound names and query from it if you have multiple compound IDs:

$ wget -nc -O cpd.txt "http://rest.kegg.jp/list/cpd"
$ grep 'C00880\|C22044' cpd.txt
cpd:C00880  D-Galactonate; D-Galactonic acid
cpd:C22044  alpha-Selinene
• 0 views • link
written by AK AK

Log in to answer this question.

More posts like this