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.

Prefix

hmdb

Alternative Prefixes

HMDB

Keywords

biochemistry bioinformatics chemical human life science metabolite metabolomics molecular biology omics phenomics proteomics

Links

Homepage

Contact

David S. Wishart   0000-0002-3207-2434   DavidWishartLab

Pattern for Local Unique Identifiers

Local identifiers in Human Metabolome Database should match this regular expression:
^HMDB\d+$

Example Local Unique Identifier

HMDB00001   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Human Metabolome Database should match this regular expression:
^hmdb:HMDB\d+$

Example CURIE

hmdb:HMDB00001

Publications

• 2022 HMDB 5.0: the Human Metabolome Database for 2022
• 2018 HMDB 4.0: the human metabolome database for 2018
• 2012 HMDB 3.0--The Human Metabolome Database in 2013
• 2007 HMDB: the Human Metabolome Database
• HMDB: a knowledgebase for the human metabolome

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

In Collection

ChEBI Data Sources Synapse.org external links

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.

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. Some providers may use a different example, which is displayed in the table below. A guide for curating additional providers can be found here.

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