HMDB: the Human Metabolome Database

David S. Wishart(University of Alberta), Dorit Tzur(University of Alberta), Craig Knox(University of Alberta), Roman Eisner(University of Alberta), An Chi Guo(University of Alberta), N. Young(University of Alberta), Dongping Cheng(University of Alberta), Keith Jewell(University of Alberta), D. Arndt(University of Alberta), Summit Sawhney(University of Alberta), Christopher Fung(University of Alberta), Lisa N. Nikolai(University of Alberta), Michael Lewis(University of Alberta), M.-A. Coutouly(University of Alberta), Ian J. Forsythe(University of Alberta), Patrick Tang(University of Alberta), S. Shrivastava(University of Alberta), Kevin Jeroncic(University of Alberta), Paul Stothard(University of Alberta), Godwin Amegbey(University of Alberta), David S. Block(University of Alberta), David Hau(University of Alberta), J. Richard Wagner(University of Alberta), J. Miniaci(University of Alberta), M L Clements(University of Alberta), Mulu Gebremedhin(University of Alberta), Nan Guo(University of Alberta), Y. Zhang(University of Alberta), Gavin E. Duggan(University of Calgary), Glen D. MacInnis(University of Calgary), Aalim M. Weljie(University of Calgary), Reza Dowlatabadi(University of Calgary), Fiona Bamforth(University of Alberta), D. Clive(University of Alberta), Russell Greiner(University of Alberta), Lei Li(University of Alberta), Thomas J. Marrie(University of Alberta), Brian D. Sykes(University of Alberta), Hans J. Vogel(University of Calgary), L. Querengesser(University of Alberta)
Nucleic Acids Research
January 3, 2007
10.1093/nar/gkl923
Cited by 3,249Open Access
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Abstract

The Human Metabolome Database (HMDB) is currently the most complete and comprehensive curated collection of human metabolite and human metabolism data in the world. It contains records for more than 2180 endogenous metabolites with information gathered from thousands of books, journal articles and electronic databases. In addition to its comprehensive literature-derived data, the HMDB also contains an extensive collection of experimental metabolite concentration data compiled from hundreds of mass spectra (MS) and Nuclear Magnetic resonance (NMR) metabolomic analyses performed on urine, blood and cerebrospinal fluid samples. This is further supplemented with thousands of NMR and MS spectra collected on purified, reference metabolites. Each metabolite entry in the HMDB contains an average of 90 separate data fields including a comprehensive compound description, names and synonyms, structural information, physico-chemical data, reference NMR and MS spectra, biofluid concentrations, disease associations, pathway information, enzyme data, gene sequence data, SNP and mutation data as well as extensive links to images, references and other public databases. Extensive searching, relational querying and data browsing tools are also provided. The HMDB is designed to address the broad needs of biochemists, clinical chemists, physicians, medical geneticists, nutritionists and members of the metabolomics community. The HMDB is available at: www.hmdb.ca.

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