Thermodynamic constraints for biochemical networks

DOI10.1016/J.JTBI.2004.01.008zbMATH Open1439.92091OpenAlexW2008875008WikidataQ51676908 ScholiaQ51676908MaRDI QIDQ2187646FDOQ2187646

Authors: Daniel A. Beard, Eric Babson, Hong Qian, Edward B. Curtis 

Publication date: 3 June 2020

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

Full work available at URL: https://doi.org/10.1016/j.jtbi.2004.01.008

Recommendations

• Stoichiometric and constraint-based analysis of biochemical reaction networks
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zbMATH Keywords

matroidnonequilibrium thermodynamicsmetabolic flux analysisbiochemical network

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Systems biology, networks (92C42) Irreversible thermodynamics, including Onsager-Machlup theory (82C35)

Cites Work

• Lectures on Polytopes
• Title not available (Why is that?)
• Title not available (Why is that?)
• An algebraic-combinatorial model for the identification and mapping of biochemical pathways

Cited In (21)

• Some consequences of thermodynamic feasibility for chemical reaction networks. Considering thermodynamic feasibility in current CRN research
• Integrated stoichiometric, thermodynamic and kinetic modelling of steady state metabolism
• Quantitative flux coupling analysis
• A Graphic Formulation of Nonisothermal Chemical Reaction Systems and the Analysis of Detailed Balanced Networks
• Determination of flux directions by thermodynamic network analysis: Computing informative metabolite pools
• Generic flux coupling analysis
• Conditions for duality between fluxes and concentrations in biochemical networks
• Precision and sensitivity in detailed-balance reaction networks
• Metabolic pathway analysis using a Nash equilibrium approach
• Energy-based analysis of biomolecular pathways
• Metabolic impact assessment for heterologous protein production in \textit{Streptomyces lividans} based on genome-scale metabolic network modeling
• Flux balance analysis: a geometric perspective
• Bond graph modelling of the cardiac action potential: implications for drift and non-unique steady states
• Flux modules in metabolic networks
• Optimizing enzymatic catalysts for rapid turnover of substrates with low enzyme sequestration
• Programming substrate-independent kinetic barriers with thermodynamic binding networks
• Capturing the essence of a metabolic network: a flux balance analysis approach
• Stoichiometric and constraint-based analysis of biochemical reaction networks
• Enzyme allocation problems in kinetic metabolic networks: optimal solutions are elementary flux modes
• Network thermodynamics of biological systems: a bond graph approach
• A variational principle for computing nonequilibrium fluxes and potentials in genome-scale biochemical networks

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