Genome-scale modeling of human metabolism - a systems biology approach.
Reviewartikel, 2013

Altered metabolism is linked to the appearance of various human diseases and a better understanding of disease-associated metabolic changes may lead to the identification of novel prognostic biomarkers and the development of new therapies. Genome-scale metabolic models (GEMs) have been employed for studying human metabolism in a systematic manner, as well as for understanding complex human diseases. In the past decade, such metabolic models – one of the fundamental aspects of systems biology – have started contributing to the understanding of the mechanistic relationship between genotype and phenotype. In this review, we focus on the construction of the Human Metabolic Reaction database, the generation of healthy cell type- and cancer-specific GEMs using different procedures, and the potential applications of these developments in the study of human metabolism and in the identification of metabolic changes associated with various disorders. We further examine how in silico genome-scale reconstructions can be employed to simulate metabolic flux distributions and how high-throughput omics data can be analyzed in a context-dependent fashion. Insights yielded from this mechanistic modeling approach can be used for identifying new therapeutic agents and drug targets as well as for the discovery of novel biomarkers. Finally, recent advancements in genome-scale modeling and the future challenge of developing a model of whole-body metabolism are presented. The emergent contribution of GEMs to personalized and translational medicine is also discussed.

Systems biology

Whole-body modeling

Genome-scale metabolic models

Personalized medicine

Human Metabolic Reaction database


Adil Mardinoglu

Chalmers, Kemi- och bioteknik, Livsvetenskaper

Francesco Gatto

Chalmers, Kemi- och bioteknik, Livsvetenskaper

Jens B Nielsen

Chalmers, Kemi- och bioteknik, Livsvetenskaper

Biotechnology journal

1860-6768 (ISSN) 1860-7314 (eISSN)

Vol. 8 9 985-996


C3SE (Chalmers Centre for Computational Science and Engineering)


Livsvetenskaper och teknik (2010-2018)


Bioinformatik och systembiologi



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