HMDB: a knowledgebase for the human metabolome

被引：1458

作者：

Wishart, David S. ^{[1
,2
,3
]}

Knox, Craig ^{[1
]}

Guo, An Chi ^{[1
]}

Eisner, Roman ^{[1
]}

Young, Nelson ^{[1
]}

Gautam, Bijaya ^{[1
]}

Hau, David D. ^{[1
]}

Psychogios, Nick ^{[1
]}

Dong, Edison ^{[1
]}

Bouatra, Souhaila ^{[1
]}

Mandal, Rupasri ^{[1
]}

Sinelnikov, Igor ^{[1
]}

Xia, Jianguo ^{[2
]}

Jia, Leslie ^{[1
]}

Cruz, Joseph A. ^{[1
]}

Lim, Emilia ^{[1
]}

Sobsey, Constance A. ^{[1
]}

Shrivastava, Savita ^{[1
]}

Huang, Paul ^{[4
]}

Liu, Philip ^{[1
]}

Fang, Lydia ^{[1
]}

Peng, Jun ^{[4
]}

Fradette, Ryan ^{[4
]}

Cheng, Dean ^{[1
]}

Tzur, Dan ^{[1
]}

Clements, Melisa ^{[4
]}

Lewis, Avalyn ^{[4
]}

De Souza, Andrea ^{[4
]}

Zuniga, Azaret ^{[4
]}

Dawe, Margot ^{[4
]}

Xiong, Yeping ^{[4
]}

Clive, Derrick ^{[4
]}

Greiner, Russ ^{[1
]}

Nazyrova, Alsu ^{[5
]}

Shaykhutdinov, Rustem ^{[5
]}

Li, Liang ^{[4
]}

Vogel, Hans J. ^{[5
]}

Forsythe, Ian ^{[1
]}

机构：

[1] Univ Alberta, Dept Comp Sci, Edmonton, AB T6G 2E8, Canada

[2] Univ Alberta, Dept Biol Sci, Edmonton, AB T6G 2E8, Canada

[3] Natl Inst Nanotechnol, Edmonton, AB T6G 2M9, Canada

[4] Univ Alberta, Dept Chem, Edmonton, AB T6G 2G2, Canada

[5] Univ Calgary, Dept Biol Sci, Calgary, AB T2N 1N4, Canada

来源：

NUCLEIC ACIDS RESEARCH | 2009年 / 37卷

基金：

加拿大健康研究院;

关键词：

COMPUTATIONAL METABOLOMICS; DATABASE; BIOLOGY; SYSTEMS; IDENTIFICATION; LIPIDOMICS;

D O I：

10.1093/nar/gkn810

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The Human Metabolome Database (HMDB, http://www.hmdb.ca) is a richly annotated resource that is designed to address the broad needs of biochemists, clinical chemists, physicians, medical geneticists, nutritionists and members of the metabolomics community. Since its first release in 2007, the HMDB has been used to facilitate the research for nearly 100 published studies in metabolomics, clinical biochemistry and systems biology. The most recent release of HMDB (version 2.0) has been significantly expanded and enhanced over the previous release (version 1.0). In particular, the number of fully annotated metabolite entries has grown from 2180 to more than 6800 (a 300% increase), while the number of metabolites with bio-fluid or tissue concentration data has grown by a factor of five (from 883 to 4413). Similarly, the number of purified compounds with reference to NMR, LC-MS and GC-MS spectra has more than doubled (from 380 to more than 790 compounds). In addition to this significant expansion in database size, many new database searching tools and new data content has been added or enhanced. These include better algorithms for spectral searching and matching, more powerful chemical substructure searches, faster text searching software, as well as dedicated pathway searching tools and customized, clickable metabolic maps. Changes to the user-interface have also been implemented to accommodate future expansion and to make database navigation much easier. These improvements should make the HMDB much more useful to a much wider community of users.

引用

页码：D603 / D610

页数：8

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