I have a list of HMDB accession codes that I need to do an enrichment/pathway analysis on. I’m using the web browser tool.
However when I upload m list, the vast majority (> 70%) come back as not having a match/not corresponding to a metabolite. I put a small subset at the bottom of this post.
This doesn’t make sense because each of these accession codes is a valid HMDB ID.
If I use the ‘Metabolite ID Conversion’ tool beforehand and use the HMDB accession off that list (see end of post for a list of HMDB accessions), I still get many molecules unrecognized by HMDB ID.
I cannot run a meaningful enrichment analysis as-is and I do not believe this is a formatting issue. If I put this same list below into ‘pathway analysis’ or ‘enrichment analysis’ and then under ‘enrichment analysis’ put ‘metabolite’ or ‘lipid’ suddenly 1-2 of these compounds are recognized – I’m just wondering is it not that the HDMB accession is valid but that there’s no solid pathway associated with these metabs?
Please advise!
small list that all fail
HMDB0037139
HMDB0059766
HMDB0059767
HMDB0060650
HMDB0061093
HMDB0061174
HMDB0061189
HMDB0061384
HMDB0240212