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Article

Analyzing and Resolving Infeasibility in Flux Balance Analysis of Metabolic Networks

Analysis and Redesign of Biological Networks, Max Planck Institute for Dynamics of Complex Technical Systems, Sandtorstr. 1, 39106 Magdeburg, Germany
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Academic Editor: Miguel Rocha
Metabolites 2022, 12(7), 585; https://doi.org/10.3390/metabo12070585
Received: 18 May 2022 / Revised: 16 June 2022 / Accepted: 21 June 2022 / Published: 23 June 2022
(This article belongs to the Section Bioinformatics and Data Analysis)
Flux balance analysis (FBA) is a key method for the constraint-based analysis of metabolic networks. A technical problem may occur in FBA when known (e.g., measured) fluxes of certain reactions are integrated into an FBA scenario rendering the underlying linear program (LP) infeasible, for example, due to inconsistencies between some of the measured fluxes causing a violation of the steady-state or other constraints. Here, we present and compare two methods, one based on an LP and one on a quadratic program (QP), to find minimal corrections for the given flux values so that the FBA problem becomes feasible. We provide a general guide on how to treat infeasible FBA systems in practice and discuss relevant examples of potentially infeasible scenarios in core and genome-scale metabolic models. Finally, we also highlight and clarify the relationships to classical metabolic flux analysis, where solely algebraic approaches are used to compute unknown metabolic rates from measured fluxes and to balance infeasible flux scenarios. View Full-Text
Keywords: constraint-based modeling; metabolic flux analysis; mass balances; weighted least-squares; quadratic programming; Escherichia coli constraint-based modeling; metabolic flux analysis; mass balances; weighted least-squares; quadratic programming; Escherichia coli
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MDPI and ACS Style

Klamt, S.; von Kamp, A. Analyzing and Resolving Infeasibility in Flux Balance Analysis of Metabolic Networks. Metabolites 2022, 12, 585. https://doi.org/10.3390/metabo12070585

AMA Style

Klamt S, von Kamp A. Analyzing and Resolving Infeasibility in Flux Balance Analysis of Metabolic Networks. Metabolites. 2022; 12(7):585. https://doi.org/10.3390/metabo12070585

Chicago/Turabian Style

Klamt, Steffen, and Axel von Kamp. 2022. "Analyzing and Resolving Infeasibility in Flux Balance Analysis of Metabolic Networks" Metabolites 12, no. 7: 585. https://doi.org/10.3390/metabo12070585

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