Question:
I would like to get the databases of experimental metabolism data in a computable format - mammalian metabolism, rat liver metabolism, rat S9 and microbial. Are these available as a download, or do I need to extract one chemical at a time through the user interface? The Toolbox documentation indicates that these databases exist, but I just can't see how to get to them.
Answer:
The metabolic maps are part of Metapath.
You can visualise them but the data, at the request of the donator, cannot be exported.
There are currently 4 databases with metabolic maps in the Toolbox:
- Observed Mammalian metabolism
- Observed Microbial metabolism
- Observed Rat In vivo metabolism
-
Observed Rat Liver S9 metabolism
All can be used like profilers:
You can view the metabolites by double-clicking on the results in the matrix:
But you can also access the actual metabolic map by performing a right-click on the results in the matrix and selecting "Show metabolite tree". This will give you access to the actual metabolic map:
As well as further details on the study [1]:
Source: https://community.oecd.org/community/toolbox_forum