Question: How to map metabolites to a MetaCyc pathway?
gravatar for azhang2
7 months ago by
azhang20 wrote:


I have a list of 600 metabolites (HMDB format) and I was wondering if there was a tool that could give me a list of pathways (in the MetaCyc format) that each metabolite is associated with. I want to relate my metabolite data to some metagenomic data that is separated by pathways. For example, I want to be able to input a metabolite such as HMDB00014 and find out what MetaCyc pathways are associated with it.

I tried using converting the HMDB IDs to KEGG IDs and I was able to connect the KEGG IDs with a list of KEGG pathways. However, there does not seem to be a clear mapping from KEGG pathways to MetaCyc pathways.


ADD COMMENTlink written 7 months ago by azhang20

KEGG and MetaCyc are competitors, so it would not surprise me if there is no mapping available between the two. If you look to the right side on this page where it says Similar posts, there seem to be many answers to similar questions, like this one.

ADD REPLYlink written 7 months ago by Mensur Dlakic6.9k

Thanks for the suggestions. I tried using MetaboAnalyst Pathway Analysis but I'm not interested in performing a pathway analysis that involves any statistical analysis. Furthermore, it seems like this program uses KEGG pathways but I need MetaCyc pathways.

I simply want to know what MetaCyc pathways are linked to the metabolite, given that I have a list of 600 metabolites.

ADD REPLYlink written 7 months ago by azhang20
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