Metabolomics Workbench Database FAQs

Question 1

What is the Metabolomics Workbench skill?

Accepted Answer

It is a specialized Claude Code skill that provides programmatic access to the NIH Metabolomics Workbench REST API, allowing users to query metabolite data, study metadata, and experimental results.

Question 2

How can I search for compounds using mass spectrometry data?

Accepted Answer

The skill enables m/z (mass-to-charge ratio) searches where you can specify ion adducts (like M+H or M-H) and mass tolerance levels to identify potential metabolite matches.

Question 3

What is RefMet and how does this skill use it?

Accepted Answer

RefMet is a standardized nomenclature for metabolites. This skill uses it to map common names to a systematic classification, ensuring consistency across different metabolomics datasets.

Question 4

Can I filter studies by specific diseases or species?

Accepted Answer

Yes, the skill supports MetStat context filtering, allowing you to find studies based on parameters like disease state, species, sample source, and analytical platform (e.g., LC-MS/GC-MS).

Question 5

What data formats are returned by this skill?

Accepted Answer

The API interactions guided by this skill support both JSON for programmatic data processing and TXT for human-readable tab-delimited summaries.

Metabolomics Workbench Database

Key Features

Use Cases

Metabolomics Workbench Database

Key Features

Use Cases