HMDB 4.0: the human metabolome database for 2018

被引：3425

作者：

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

Feunang, Yannick Djoumbou ^{[1
]}

Marcu, Ana ^{[1
]}

Guo, An Chi ^{[1
]}

Liang, Kevin ^{[1
]}

Vazquez-Fresno, Rosa ^{[1
]}

Sajed, Tanvir ^{[2
]}

Johnson, Daniel ^{[1
]}

Li, Carin ^{[1
]}

Karu, Naama ^{[1
]}

Sayeeda, Zinat ^{[2
]}

Lo, Elvis ^{[1
]}

Assempour, Nazanin ^{[1
]}

Berjanskii, Mark ^{[1
]}

Singhal, Sandeep ^{[1
]}

Arndt, David ^{[1
]}

Liang, Yonjie ^{[1
]}

Badran, Hasan ^{[1
]}

Grant, Jason ^{[1
]}

Serra-Cayuela, Arnau ^{[1
]}

Liu, Yifeng ^{[2
]}

Mandal, Rupa ^{[1
]}

Neveu, Vanessa ^{[4
]}

Pon, Allison ^{[1
,5
]}

Knox, Craig ^{[1
,5
]}

Wilson, Michael ^{[1
,5
]}

Manach, Claudine ^{[6
]}

Scalbert, Augustin ^{[4
]}

机构：

[1] Univ Alberta, Dept Biol Sci, Edmonton, AB T6G 2E9, Canada

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

[3] Univ Alberta, Fac Pharm & Pharmaceut Sci, Edmonton, AB T6G 2N8, Canada

[4] IARC, 150 Cours Albert Thomas, F-69372 Lyon 08, France

[5] OMx Personal Hlth Analyt Inc, 301-10359 104 St NW, Edmonton, AB T5J 1B9, Canada

[6] Univ Clermont Auvergne, INRA, Human Nutr Unit, F-63000 Clermont Ferrand, France

来源：

NUCLEIC ACIDS RESEARCH | 2018年 / 46卷 / D1期

基金：

加拿大健康研究院;

关键词：

NATURAL-PRODUCTS; PATHWAYS; KNOWLEDGEBASE; COLLECTION; PREDICTION; REPOSITORY; DISEASES; SMPDB;

D O I：

10.1093/nar/gkx1089

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 or HMDB (www.hmdb.ca) is a web-enabled metabolomic database containing comprehensive information about human metabolites along with their biological roles, physiological concentrations, disease associations, chemical reactions, metabolic pathways, and reference spectra. First described in 2007, the HMDB is now considered the standard metabolomic resource for human metabolic studies. Over the past decade the HMDB has continued to grow and evolve in response to emerging needs for metabolomics researchers and continuing changes in web standards. This year's update, HMDB 4.0, represents the most significant upgrade to the database in its history. For instance, the number of fully annotated metabolites has increased by nearly threefold, the number of experimental spectra has grown by almost fourfold and the number of illustrated metabolic pathways has grown by a factor of almost 60. Significant improvements have also been made to the HMDB's chemical taxonomy, chemical ontology, spectral viewing, and spectral/text searching tools. A great deal of brand new data has also been added to HMDB 4.0. This includes large quantities of predicted MS/MS and GC-MS reference spectral data as well as predicted (physiologically feasible) metabolite structures to facilitate novel metabolite identification. Additional information on metabolite-SNP interactions and the influence of drugs on metabolite levels (pharmacometabolomics) has also been added. Many other important improvements in the content, the interface, and the performance of the HMDB website have been made and these should greatly enhance its ease of use and its potential applications in nutrition, biochemistry, clinical chemistry, clinical genetics, medicine, and metabolomics science.

引用

页码：D608 / D617

页数：10

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