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hmdb-database

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

557|98|Updated Nov 7, 2025
Search Tags:#database#metabolomics#metabolites#biomarkers#human metabolism#chemical identification
One-click install
npx skills add https://github.com/jimmc414/Kosmos --skill hmdb-database-jimmc414
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: hmdb-database
Source: https://github.com/jimmc414/Kosmos/tree/main/kosmos-claude-scientific-skills/scientific-skills/hmdb-database
Command: npx skills add https://github.com/jimmc414/Kosmos --skill hmdb-database-jimmc414

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: Obtain comprehensive data including chemical properties, biological context, clinical relevance, and spectral data.
  • Use Case: A researcher investigating metabolic disorders can use this Skill to identify potential biomarkers by searching for metabolites associated with specific diseases and reviewing their concentration data.

Quick Start

Search the HMDB 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 for human metabolites and biomarkers in biological research?▼

To search for human metabolites and biomarkers, query the HMDB database by metabolite name, ID, or chemical structure to retrieve detailed chemical properties, biological context, and clinical relevance data for over 220,000 metabolites.

What metabolite information is available for identifying clinical biomarkers?▼

Metabolite information available for identifying clinical biomarkers includes chemical properties, biological context, clinical relevance, spectral data, and pathway information, which helps researchers review concentration data associated with specific diseases.

Can I retrieve spectral data and pathway information for metabolomics research?▼

Yes, you can retrieve spectral data and pathway information for metabolomics research by searching the database for specific metabolites, which returns comprehensive biological context and clinical relevance details for chemical identification.

How do I find metabolites associated with a specific metabolic disorder like diabetes?▼

To find metabolites associated with a metabolic disorder like diabetes, search the database using the disease name to identify potential biomarkers and review their corresponding concentration and clinical relevance data.

Do I need metabolomics research knowledge to query the human metabolism database?▼

Yes, querying the human metabolism database requires an understanding of metabolomics research and database querying principles to effectively search by name, ID, or structure and interpret the retrieved chemical properties.

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