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A variational principle for computing nonequilibrium fluxes and potentials in genome-scale biochemical networks
Constraint-based modeling Flux balance analysis
2015/7/3
We derive a convex optimization problem on a steady-state nonequilibrium network of biochemical
reactions, with the property that energy conservation and the second law of thermodynamics both hold
a...
Computing fluxes and chemical potential distributions in biochemical networks: energy balance analysis of the human red blood cell
Metabolioc networks energy balance analysis thermodynamic efficiency
2011/8/16
Abstract: The analysis of non-equilibrium steady states of biochemical reaction networks relies on finding the configurations of fluxes and chemical potentials satisfying stoichiometric (mass balance)...
Flows in complex biochemical networks: Role of low degree nodes
Flows complex biochemical networks low degree nodes
2011/1/5
Metabolic networks have two properties that are generally regarded as unrelated: One, they have metabolic reactions whose single knockout is lethal for the organism, and two, they have correlated sets...
Analysis of Synergism in Biochemical Networks
synergism systems analysis biochemical networks MathSBML FAST
2010/12/21
Probabilistic approach to analysis of synergism in mathematical models of biochemical
networks is introduced. It is based on system analysis concept when information on the
importance of a parameter...
Review of "Computational Modeling of Genetic and Biochemical Networks" edited by James M. Bower and Hamid Bolouri
Computational Modeling Genetic and Biochemical Networks James M. Bower Hamid Bolouri
2010/2/26
Since the coming-of-age of the scientific discipline called bioinformatics it has become increasingly clear that computers in biology will be important not only for managing and analyzing biological a...