hmdb-database - HMDB Metabolome Database Access
Access HMDB's 220K+ metabolites. Search by name/ID/structure to retrieve chemical properties, spectra, and pathways.
Tags
Updated: 2026-03-26Capabilities
Typical Inputs
Typical Outputs
What this skill does
- search metabolites by name
- search by HMDB ID
- search by chemical structure
- perform spectral searches
- match LC-MS spectra
- match GC-MS spectra
- search NMR spectra
- search by disease associations
- search by pathway involvement
- query by specimen type
- search by molecular weight
- search using SMILES strings
- search using InChI strings
- download metabolite datasets
- download protein sequences
- download spectra data
- retrieve chemical properties
- retrieve biological context
- retrieve clinical data
- retrieve analytical data
Inputs
- metabolite name
- HMDB ID
- chemical structure
- SMILES string
- InChI string
- molecular weight
- LC-MS spectra
- GC-MS spectra
- NMR spectra
- disease name
- pathway name
- specimen type
- protein identifier
Outputs
- metabolite information
- chemical properties
- biological pathways
- enzyme associations
- biomarker data
- concentration ranges
- NMR spectra
- MS spectra
- MS-MS spectra
- protein sequences
- XML datasets
- SDF structure files
- CSV tabular data
- FASTA sequences
- TXT peak lists
Requirements
- internet connection
- academic or non-commercial use license
- commercial use permission
- HMDB citation in publications