Issues with group editing and normalization using ref feature in pathway analysis

[Tonmoy_Ghosh]

Hello everyone

I am trying to use the pathway analysis feature in MetaboAnalyst 6.0. My experiment consists of different treatments with the same analyte on a microalga and investigating the metabolite changes. However, whenever I upload the csv files, the analysis seems to run into roadblocks:

1.  The group editor dialog box doesn’t appear (screenshot_1) although the data check proceeds smoothly.
   

2.  Even though I’ve included the HMDB IDs (manually curated), the name check still excludes some of the metabolites (screenshot_2).
   

3. The normalization by reference feature freezes when trying to specify the metabolite to be used for referencing (screenshot_3).
   

Attached is a copy of the csv datafile. The one-factor data analysis using the same dataset (with compound names instead of HMDB IDs) works very well and there are no issues. The problem seems to be only in pathway analysis.

pathway analysis.csv (12.8 KB)

I apologize if the questions seem too naive, but I’m a newcomer to omics analyses and would greatly appreciate any help from the community.

Thanks in advance

Tonmoy

[xia.lab]

The data link seems broken, so I cannot tell what is the issue.

If statistical analysis worked, you can just copy and paste the significant compound list for pathway analysis.

Note on your comment “some HMDB IDs are not matched” - this is intentional, as this workflow mainly on core compounds with functional annotation (i.e. involved in pathways, ~ 8000)