Capturing the essence of a metabolic network: a flux balance analysis approach

DOI10.1016/J.JTBI.2009.06.013MaRDI QIDQ1625919zbMATH OpenOpenAlexWikidataFDO

Authors Ettore Murabito, Evangelos Simeonidis, Kieran Smallbone, Jonathan Swinton

Publication date 26 November 2018

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL http://eprints.maths.manchester.ac.uk/1280/1/murabito09.pdf

zbMATH Keywords

alternate optimal patternsalternate optimal solutionsminimal effort principleminimal optimal subnetworkmixed integer linear programming problem

Mathematics Subject Classification ID

Mixed integer programming (90C11) Biochemistry, molecular biology (92C40) Systems biology, networks (92C42)

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Cites work

• A Survey and Comparison of Methods for Finding All Vertices of Convex Polyhedral Sets
• Finding the convex hull facet by facet
• Flux balance analysis: a geometric perspective
• Thermodynamic constraints for biochemical networks

Cited in

(20)

• Computational method for inferring objective function of glycerol metabolism in Klebsiella pneumoniae
• A new constraint-based description of the steady-state flux cone of metabolic networks
• Flux balance analysis: a geometric perspective
• An improved multi-parametric programming algorithm for flux balance analysis of metabolic networks
• Structural analysis of metabolic networks based on flux centrality
• Restricted cooperative games on metabolic networks reveal functionally important reactions
• A simplex approach to solving robust metabolic models with low-dimensional uncertainty
• Reconstructing metabolic flux vectors from extreme pathways: defining the \(\alpha\)-spectrum
• Metabolic impact assessment for heterologous protein production in \textit{Streptomyces lividans} based on genome-scale metabolic network modeling
• Incorporation of flexible objectives and time-linked simulation with flux balance analysis
• A metabolic network comparison method based on wavelet transformation
• Flux modules in metabolic networks
• On dynamically generating relevant elementary flux modes in a metabolic network using optimization
• The Compact Kernel of a Metabolic Flux Balance Solution Space
• Comparative and analysis of microbial genome-scale metabolic network model construction methods
• Enumeration and Cartesian product decomposition of alternate optimal fluxes in cellular metabolism
• Parallelization of nullspace algorithm for the computation of metabolic pathways
• Metabolic pathway analysis using a Nash equilibrium approach
• Regulatory dynamic enzyme-cost flux balance analysis: a unifying framework for constraint-based modeling
• On flux coupling analysis of metabolic subsystems

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