hmdb-database

Retrieve metabolomic data from the Human Metabolome Database by name, ID, structure, or disease.

8|Updated Jan 13, 2026
One-click install
npx skills add https://github.com/hxk622/TokenDance --skill hmdb-database-hxk622
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: hmdb-database
Source: https://github.com/hxk622/TokenDance/tree/main/backend/app/skills/builtin/scientific/chemistry/hmdb-database
Command: npx skills add https://github.com/hxk622/TokenDance --skill hmdb-database-hxk622

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

This Skill provides access to the Human Metabolome Database (HMDB), enabling researchers to find detailed information about metabolites, their properties, and their roles in human health and disease.

Core Features & Use Cases

  • Metabolite Search: Find metabolites by name, ID, structure, or associated disease.
  • Data Retrieval: Access chemical properties, biological context, clinical data, and spectral information.
  • Use Case: Identify potential biomarkers for a specific disease by searching for metabolites associated with it and reviewing their concentration data.

Quick Start

Search the HMDB database for metabolites related to diabetes.

Frequently Asked Questions about hmdb-database

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I search the Human Metabolome Database for metabolites associated with a specific disease?

Search the Human Metabolome Database by querying associated diseases to retrieve relevant metabolites. This returns comprehensive biological context and clinical data, enabling researchers to identify metabolite relationships within specific human health conditions.

What metabolomic data can I retrieve for drug discovery research?

Metabolomic data retrieval for drug discovery includes chemical properties, biological context, clinical data, and spectral information. Researchers obtain detailed metabolite profiles by searching names, IDs, or structures to support comprehensive pharmacological and clinical chemistry investigations.

Can I find biomarker discovery data using metabolite concentration values?

Biomarker discovery is supported by retrieving metabolite concentration data and associated disease information. Researchers search for disease-linked metabolites and review their clinical concentration values to identify potential biomarkers for specific human health conditions.

How do I identify metabolites using spectral information and chemical structures?

Metabolite identification utilizes spectral information and chemical structure queries within the Human Metabolome Database. Researchers retrieve detailed chemical properties and spectral data by searching structural features to confirm metabolite identities for metabolomics research.

Does the Human Metabolome Database require specific environment setup for programmatic access?

Programmatic access to the Human Metabolome Database requires no specific environment setup or dependencies. Researchers can directly query metabolite names, IDs, structures, and associated diseases to retrieve comprehensive metabolomic data for clinical chemistry research.