Flux balance analysis: interrogating genome-scale metabolic networks

Matthew A Oberhardt; Arvind K Chavali; Jason A Papin

doi:10.1007/978-1-59745-525-1_3

Flux balance analysis: interrogating genome-scale metabolic networks

Methods Mol Biol. 2009:500:61-80. doi: 10.1007/978-1-59745-525-1_3.

Authors

Matthew A Oberhardt¹, Arvind K Chavali, Jason A Papin

Affiliation

¹ Department of Biomedical Engineering, University of Virginia, Charlottesville, USA.

PMID: 19399432
DOI: 10.1007/978-1-59745-525-1_3

Abstract

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.

Publication types

Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Algorithms
Animals
Computer Simulation*
Genome*
Humans
Metabolic Networks and Pathways*
Models, Biological*
Software
Systems Biology / methods*
Thermodynamics