TY - JOUR
T1 - The Virtual Metabolic Human database
T2 - Integrating human and gut microbiome metabolism with nutrition and disease
AU - Noronha, Alberto
AU - Modamio, Jennifer
AU - Jarosz, Yohan
AU - Guerard, Elisabeth
AU - Sompairac, Nicolas
AU - Preciat, German
AU - Daníelsdóttir, Anna Dröfn
AU - Krecke, Max
AU - Merten, Diane
AU - Haraldsdóttir, Hulda S.
AU - Heinken, Almut
AU - Heirendt, Laurent
AU - Magnúsdóttir, Stefanía
AU - Ravcheev, Dmitry A.
AU - Sahoo, Swagatika
AU - Gawron, Piotr
AU - Friscioni, Lucia
AU - Garcia, Beatriz
AU - Prendergast, Mabel
AU - Puente, Alberto
AU - Rodrigues, Mariana
AU - Roy, Akansha
AU - Rouquaya, Mouss
AU - Wiltgen, Luca
AU - Žagare, Alise
AU - John, Elisabeth
AU - Krueger, Maren
AU - Kuperstein, Inna
AU - Zinovyev, Andrei
AU - Schneider, Reinhard
AU - Fleming, Ronan M.T.
AU - Thiele, Ines
N1 - Funding Information:
Luxembourg National Research Fund (FNR) through the ATTRACT program [FNR/A12/01]; FNR CORE program [C16/BM/11332722]; FNR OPEN grant [FNR/O16/11402054]; FNR National Centre of Excellence in Research (NCER) on Parkinson's disease; European Union's Horizon 2020 research and innovation program under grant agreement [668738]; European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program [757922]. This study received generous support from the Art2Cure ASBL for the generation of ReconMaps. Funding for open access charge: Luxembourg National Research Fund (FNR) through the ATTRACT program [FNR/A12/01].
Publisher Copyright:
© 2018 The Author(s).
PY - 2019/1/8
Y1 - 2019/1/8
N2 - 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, 3695 human 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.
AB - 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, 3695 human 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.
UR - https://www.scopus.com/pages/publications/85059149423
M3 - Article
C2 - 30371894
AN - SCOPUS:85059149423
SN - 0305-1048
VL - 47
SP - D614-D624
JO - Nucleic Acids Research
JF - Nucleic Acids Research
IS - D1
ER -