Question: How to analyze metabolome data?
0
gravatar for benjytan1488
6 days ago by
benjytan14880 wrote:

Hi,

Can anyone please point me to the right direction on how to process my metabolome data? What I received was a Excel spreadsheet as shown below.

Example Data

I tried using MetaboAnalyst and was able to at least analyze the statistical parts. But I was unable to perform enrichment / pathway analysis.

Viewing my data, I noticed some metabolites have duplicates with different TMS. For example, I have Glutamine-3TMS and Glutamine-4TMS and I have Glucuronic acid-meto-5TMS(1) and Glucuronic acid-meto-5TMS(2). What do these different TMS or duplicate means?

I'm not really familiar with metabolomics, so could someone please share some resources for my understanding?

Thank you very much.

metabolomics • 80 views
ADD COMMENTlink modified 4 days ago by Biostar ♦♦ 20 • written 6 days ago by benjytan14880

Those are derivatives :
https://webbook.nist.gov/cgi/inchi?ID=R439028
https://webbook.nist.gov/cgi/inchi?ID=R620056

ADD REPLYlink modified 6 days ago • written 6 days ago by genomax89k

I see. If those are derivatives, which values should I use for the analysis? For example, Glutamine-3TMS and Glutamine-4TMS, how can I combine those results? Or do I have to pick 1 derivative to use?

ADD REPLYlink modified 5 days ago • written 5 days ago by benjytan14880

Someone else will have to answer that since I don't know anything about metabolomics. I just posted those links to add some information.

ADD REPLYlink written 4 days ago by genomax89k

Could seek advice from the core facility or company who ran the experiment. Often, these metabolites are by-products of the same pathway. In metabolomics, there is still much to be done - we still do not know the identity of ~90% of the metabolites that can be identified in blood. If you check my publications, you'll find a few metabolomics studies, so, you could follow those, too.

ADD REPLYlink written 4 days ago by Kevin Blighe65k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1914 users visited in the last hour