How does this skill handle metabolite nomenclature?

It uses the RefMet database to map common names to standardized nomenclature and systematic classifications across four structural resolution levels.

What is the Metabolomics Workbench Skill?

It is a specialized Claude Code Skill that enables programmatic access to the NIH Metabolomics Workbench REST API, allowing users to query chemical and experimental data directly within their workflow.

Can I search for specific mass spectrometry data?

Yes, you can search by mass-to-charge ratio (m/z) while specifying ion adduct types like M+H or M-H and setting custom mass tolerances.

What types of studies are available through this skill?

You can access over 4,200 studies covering diverse analytical platforms (GC-MS, LC-MS, NMR) and biological contexts including various species and disease states.

Metabolomics Workbench Database

Name: Metabolomics Workbench Database
Author: Microck

byMicrock

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Ciencia de Datos y ML

Accesses the NIH Metabolomics Workbench API to query metabolites, experimental studies, and standardized chemical nomenclature.

The Metabolomics Workbench Database skill provides Claude with programmatic access to the NIH Common Fund-sponsored platform, the primary repository for metabolomics research. This skill allows researchers and bioinformaticians to search over 4,200 processed studies, perform mass spectrometry m/z searches, and standardize metabolite nomenclature using RefMet. It is essential for biomarker discovery, retrieving molecular structures, and exploring associations between genes, proteins, and metabolites across LC-MS, GC-MS, and NMR platforms.

Características Principales

01Filter studies by analytical platform, species, sample source, and disease state

02Query detailed study metadata and complete experimental results

03Standardize metabolite names and classifications using RefMet

04Retrieve molecular structures and cross-reference PubChem, KEGG, and HMDB IDs

05Perform m/z searches with custom ion adducts and mass tolerances

0681 GitHub stars

Casos de Uso

01Cross-referencing metabolite identifiers for pathway analysis

02Gathering experimental datasets for meta-analysis or machine learning

03Identifying candidate metabolites from mass spectrometry data

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add microck/ordinary-claude-skills metabolomics-workbench-database

For use in Claude.ai and ChatGPT

Download Skill