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hmdb-database

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

Updated Mar 10, 2026
Search Tags:#metabolomics#metabolites#biomarker discovery#HMDB#chemical database#human metabolism
One-click install
npx skills add https://github.com/Yezez9/Research-Agent --skill hmdb-database-yezez9
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: hmdb-database
Source: https://github.com/Yezez9/Research-Agent/tree/main/scientific-skills/hmdb-database
Command: npx skills add https://github.com/Yezez9/Research-Agent --skill hmdb-database-yezez9

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 biological processes and diseases.

Core Features & Use Cases

  • Metabolite Search: Search for metabolites by name, ID, or chemical structure.
  • Data Retrieval: Access comprehensive data including chemical properties, biological context, clinical information, and spectral data.
  • Use Case: A researcher needs to identify unknown compounds detected in a metabolomics study. They can use this Skill to search HMDB by mass spectrometry data to find potential matches and retrieve their known properties and associated pathways.

Quick Start

Search the Human Metabolome Database for metabolites related to the disease '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 related to a specific disease?▼

Search the Human Metabolome Database by querying metabolites linked to a specific disease like diabetes to retrieve their chemical properties, biological pathways, and clinical relevance.

How can I identify unknown compounds detected in a metabolomics study?▼

Identify unknown compounds in a metabolomics study by searching the HMDB using mass spectrometry data to find potential matches and retrieve their known properties and associated biological pathways.

What specific information can I retrieve about human metabolites using HMDB?▼

Retrieve detailed human metabolites data from HMDB including chemical properties, biological context, clinical information, and spectral data for over 220,000 known metabolites.

Can I search HMDB metabolites by name, ID, or chemical structure?▼

Search HMDB metabolites by name, ID, or chemical structure to find potential matches and retrieve comprehensive data on their known properties and associated pathways.

Does HMDB access support biomarker discovery research?▼

HMDB access supports biomarker discovery by providing extensive metabolite data including clinical relevance and biological pathways, facilitating research in metabolomics and disease association.

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