The Human Metabolome Database (HMDB) is a database containing detailed information about small molecule metabolites found in the human body.It contains or links 1) chemical 2) clinical and 3) molecular biology/biochemistry data.

Alternative Prefixes
biochemistry bioinformatics chemical human life science metabolite metabolomics molecular biology omics phenomics proteomics
David S. Wishart   0000-0002-3207-2434   DavidWishartLab
Pattern for Local Unique Identifiers

Local identifiers in Human Metabolome Database should match this regular expression:

Example Local Unique Identifier
HMDB00001   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Human Metabolome Database should match this regular expression:

Example CURIE

A summary of the relations in the Bioregistry schema can be found here.

In Collection
ChEBI Data Sources
Metaregistry Human Metabolome Database

The metaregistry provides mappings between the Bioregistry and other registries. There are 12 mappings to external registries for this resource with 8 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
BioContext biocontext HMDB
CHEMINF cheminf 000408
EDAM EDAM Ontology logo edam 2622
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.sye5js
Integbio Integbio logo integbio nbdc00909 logo miriam hmdb
N2T Name-to-Thing logo n2t hmdb
Pathguide Pathguide logo pathguide 244
Prefix Commons Prefix Commons logo prefixcommons hmdb
re3data Registry of Research Data Repositories logo re3data r3d100011285
TogoID togoid Hmdb
Wikidata Wikidata Property logo wikidata P2057

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier HMDB00001 is used to demonstrate the providers available for Human Metabolome Database. A guide for curating additional providers can be found here.

Name Metaprefix URI
Human Metabolome Database hmdb
Bioregistry bioregistry miriam
Name-to-Thing n2t
Extra Providers

Additional providers curated in the Bioregistry are listed here. These are typically inherited from or Prefix Commons, and need extra curation.

Code Name URL
bio2rdf Bio2RDF