hmdb-database

Search the Human Metabolome Database for metabolites and retrieve chemical properties.

Updated Aug 23, 2026

Search Tags:#metabolomics #pathways #hmdb #spectra #biomarkers

One-click install

npx skills add https://github.com/merllinsbeard/ai-claude-skills-collection --skill hmdb-database-merllinsbeard

Or copy as Structured Prompt for Agent▼

Please help me install this Agent Skill.
Skill: hmdb-database
Source: https://github.com/merllinsbeard/ai-claude-skills-collection/tree/main/scientific/hmdb-database
Command: npx skills add https://github.com/merllinsbeard/ai-claude-skills-collection --skill hmdb-database-merllinsbeard

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

This Skill enables programmatic access to the Human Metabolome Database to search for metabolites by name or identifier, retrieve chemical properties, biomarker associations, pathways, and experimental spectra (NMR/MS) for metabolomics and biomarker discovery.

Core Features & Use Cases

Web-based metabolite search, structure, and biomarker info
Retrieve chemical properties (formula, MW, SMILES, InChI)
Access spectral data (NMR, MS) and pathway associations
Use case: identify a metabolite observed in LC-MS workflows by HMDB ID

Quick Start

Query HMDB for HMDB0000001 to retrieve its data, or download HMDB XML/CSV for local analysis.