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Basic concepts and principles of stoichiometric modeling of metabolic networks.


ABSTRACT: Metabolic networks supply the energy and building blocks for cell growth and maintenance. Cells continuously rewire their metabolic networks in response to changes in environmental conditions to sustain fitness. Studies of the systemic properties of metabolic networks give insight into metabolic plasticity and robustness, and the ability of organisms to cope with different environments. Constraint-based stoichiometric modeling of metabolic networks has become an indispensable tool for such studies. Herein, we review the basic theoretical underpinnings of constraint-based stoichiometric modeling of metabolic networks. Basic concepts, such as stoichiometry, chemical moiety conservation, flux modes, flux balance analysis, and flux solution spaces, are explained with simple, illustrative examples. We emphasize the mathematical definitions and their network topological interpretations.

SUBMITTER: Maarleveld TR 

PROVIDER: S-EPMC4671265 | biostudies-literature | 2013 Sep

REPOSITORIES: biostudies-literature

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Basic concepts and principles of stoichiometric modeling of metabolic networks.

Maarleveld Timo R TR   Khandelwal Ruchir A RA   Olivier Brett G BG   Teusink Bas B   Bruggeman Frank J FJ  

Biotechnology journal 20130729 9


Metabolic networks supply the energy and building blocks for cell growth and maintenance. Cells continuously rewire their metabolic networks in response to changes in environmental conditions to sustain fitness. Studies of the systemic properties of metabolic networks give insight into metabolic plasticity and robustness, and the ability of organisms to cope with different environments. Constraint-based stoichiometric modeling of metabolic networks has become an indispensable tool for such studi  ...[more]

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