The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease

被引：232

作者：

Noronha, Alberto ^{[1
]}

Modamio, Jennifer ^{[1
]}

Jarosz, Yohan ^{[1
]}

Guerard, Elisabeth ^{[1
]}

Sompairac, Nicolas ^{[2
,3
]}

Preciat, German ^{[1
]}

Danielsdottir, Anna Drofn ^{[1
]}

Krecke, Max ^{[1
]}

Merten, Diane ^{[1
]}

Haraldsdottir, Hulda S. ^{[1
]}

Heinken, Almut ^{[1
]}

Heirendt, Laurent ^{[1
]}

Magnusdottir, Stefania ^{[1
]}

Ravcheev, Dmitry A. ^{[1
]}

Sahoo, Swagatika ^{[1
,5
,6
]}

Gawron, Piotr ^{[1
]}

Friscioni, Lucia ^{[1
]}

Garcia, Beatriz ^{[1
]}

Prendergast, Mabel ^{[1
]}

Puente, Alberto ^{[1
]}

Rodrigues, Mariana ^{[1
]}

Roy, Akansha ^{[1
]}

Rouquaya, Mouss ^{[1
]}

Wiltgen, Luca ^{[1
]}

Zagare, Alise ^{[1
]}

John, Elisabeth ^{[1
]}

Krueger, Maren ^{[1
]}

Kuperstein, Inna ^{[2
,3
]}

Zinovyev, Andrei ^{[2
,3
]}

Schneider, Reinhard ^{[1
]}

Fleming, Ronan M. T. ^{[1
,4
]}

Thiele, Ines ^{[1
]}

机构：

[1] Univ Luxembourg, Luxembourg Ctr Syst Biomed, Campus Belval, L-4367 Esch Sur Alzette, Luxembourg

[2] PSL Res Univ, INSERM, U900, Inst Curie, F-75005 Paris, France

[3] PSL Res Univ, MINES ParisTech, CBIO Ctr Computat Biol, F-75006 Paris, France

[4] Leiden Univ, Fac Sci, Leiden Acad Ctr Drug Res, Div Syst Biomed & Pharmacol, NL-2333 Leiden, Netherlands

[5] Indian Inst Technol, Dept Chem Engn, Chennai 600036, Tamil Nadu, India

[6] Indian Inst Technol, IBSE, Chennai 600036, Tamil Nadu, India

来源：

NUCLEIC ACIDS RESEARCH | 2019年 / 47卷 / D1期

基金：

欧盟地平线“2020”; 欧洲研究理事会;

关键词：

GLOBAL RECONSTRUCTION; MOLECULAR-BIOLOGY; PREDICTION; HEALTH; MAP;

D O I：

10.1093/nar/gky992

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：

A multitude of factors contribute to complex diseases and can be measured with omics' methods. Databases facilitate data interpretation for underlying mechanisms. Here, we describe the Virtual Metabolic Human (VMH, www.vmh.life) database encapsulating current knowledge of human metabolism within five interlinked resources Human metabolism', Gut microbiome', Disease', Nutrition', and ReconMaps'. The VMH captures 5180 unique metabolites, 17 730 unique reactions, 3695human genes, 255 Mendelian diseases, 818 microbes, 632 685 microbial genes and 8790 food items. The VMH's unique features are (i) the hosting of the metabolic reconstructions of human and gut microbes amenable for metabolic modeling; (ii) seven human metabolic maps for data visualization; (iii) a nutrition designer; (iv) a user-friendly webpage and application-programming interface to access its content; (v) user feedback option for community engagement and (vi) the connection of its entities to 57 other web resources. The VMH represents a novel, interdisciplinary database for data interpretation and hypothesis generation to the biomedical community.

引用

页码：D614 / D624

页数：11

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