Systems Biology

Volume 500 of the series Methods in Molecular Biology pp 61-80


Flux Balance Analysis: Interrogating Genome-Scale Metabolic Networks

  • Matthew A. Oberhardt
  • , Arvind K. Chavali
  • , Jason A. PapinAffiliated withDepartment of Biomedical Engineering, University of Virginia Email author 

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Flux balance analysis (FBA) is a computational method to analyze reconstructions of biochemical networks. FBA requires the formulation of a biochemical network in a precise mathematical framework called a stoichiometric matrix. An objective function is defined (e.g., growth rate) toward which the system is assumed to be optimized. In this chapter, we present the methodology, theory, and common pitfalls of the application of FBA.


Systems biology Metabolic reconstruction Flux balance analysis Metabolomics Constraint-based modeling Genome-scale network