2016
DOI: 10.1103/physrevx.6.041064
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Abstract: We build a rigorous nonequilibrium thermodynamic description for open chemical reaction networks of elementary reactions. Their dynamics is described by deterministic rate equations with mass action kinetics. Our most general framework considers open networks driven by time-dependent chemostats. The energy and entropy balances are established and a nonequilibrium Gibbs free energy is introduced. The difference between this latter and its equilibrium form represents the minimal work done by the chemostats to br… Show more

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Cited by 150 publications
(248 citation statements)
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References 123 publications
(231 reference statements)
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“…New and profound reformulations of the second law based on an irreversible Markovian description of small systems have allowed the treatment of dissipative systems far from equilibrium (Esposito and Van den Broeck, 2010; Van den Broeck and Esposito, 2015). Even more interestingly for the field of biochemical engineering, Polettini et al (2015) and Rao and Esposito (2016) have extended such theoretical developments to describe open and complex balanced chemical reaction networks, including oscillatory systems. Since this Stochastic Thermodynamics approach is built upon the Master Equation formulation, we also conclude that the results shown in this paper provide further confirming evidence for their theory.…”
Section: Resultsmentioning
confidence: 99%
“…New and profound reformulations of the second law based on an irreversible Markovian description of small systems have allowed the treatment of dissipative systems far from equilibrium (Esposito and Van den Broeck, 2010; Van den Broeck and Esposito, 2015). Even more interestingly for the field of biochemical engineering, Polettini et al (2015) and Rao and Esposito (2016) have extended such theoretical developments to describe open and complex balanced chemical reaction networks, including oscillatory systems. Since this Stochastic Thermodynamics approach is built upon the Master Equation formulation, we also conclude that the results shown in this paper provide further confirming evidence for their theory.…”
Section: Resultsmentioning
confidence: 99%
“…We have found in previous work that such models have a rich dynamics even for polymers which have no sequences 41 . Such an approach based on Stochastic Thermodynamics was extended for general chemical networks in Ref 20 . We plan to explore in future work such an approach to polymers which have a sequence.…”
Section: Discussionmentioning
confidence: 99%
“…To completely solve the model, we need to go back to Eqs (3)(4)(5), and take their mean and the mean of their squares at the steady state. This yields the additional relations:…”
Section: Homo-oligomersmentioning
confidence: 99%