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Title
Genome-scale metabolic models applied to human health and disease
Authors
Keywords
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Journal
Wiley Interdisciplinary Reviews-Systems Biology and Medicine
Volume 9, Issue 6, Pages e1393
Publisher
Wiley
Online
2017-06-24
DOI
10.1002/wsbm.1393
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- (2016) Sandra Placzek et al. NUCLEIC ACIDS RESEARCH
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- (2016) André Schultz et al. PLoS Computational Biology
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- (2010) Nathan E Lewis et al. Molecular Systems Biology
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- (2010) Livnat Jerby et al. Molecular Systems Biology
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- (2010) Christopher S Henry et al. NATURE BIOTECHNOLOGY
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- (2008) Adam M Feist et al. NATURE BIOTECHNOLOGY
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