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HMDB: the Human Metabolome Database.

David S Wishart1, Dan Tzur, Craig Knox

  • 1Department of Computing Science, University of Alberta, Edmonton, AB, Canada T6G 2E8. david.wishart@ualberta.ca

Nucleic Acids Research
|January 5, 2007
PubMed
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This summary is machine-generated.

The Human Metabolome Database (HMDB) offers comprehensive data on over 2180 human metabolites, integrating literature and experimental findings. This resource supports researchers in biochemistry, medicine, and nutrition by providing extensive metabolite information and analysis tools.

Area of Science:

  • Biochemistry
  • Metabolomics
  • Bioinformatics

Background:

  • The Human Metabolome Database (HMDB) is a critical resource for human metabolism research.
  • Existing data repositories often lack comprehensive, curated information on human metabolites.

Purpose of the Study:

  • To present the Human Metabolome Database (HMDB) as the most complete curated collection of human metabolite and metabolism data.
  • To detail the scope, content, and accessibility of the HMDB.

Main Methods:

  • Compilation of data from thousands of books, journal articles, and electronic databases.
  • Integration of experimental metabolomic data from mass spectrometry (MS) and Nuclear Magnetic Resonance (NMR) analyses.
  • Inclusion of spectral data for purified reference metabolites.

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Main Results:

  • The HMDB contains records for over 2180 endogenous metabolites.
  • Each entry includes an average of 90 data fields, covering chemical, physical, spectral, and biological information.
  • Extensive data on biofluid concentrations, disease associations, pathway information, and genetic links are provided.

Conclusions:

  • The HMDB serves as an invaluable, comprehensive resource for the metabolomics community.
  • It facilitates research across various disciplines including biochemistry, clinical chemistry, and medicine.
  • The database is accessible online at www.hmdb.ca for broad scientific use.