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Orthogonality of fluxes in general nonlinear reaction networks
| 1. | Weierstrass Institute for Applied Analysis and Stochastics, Mohrenstrasse 39, 10117 Berlin, Germany |
| 2. | Department of Mathematical Sciences, University of Bath, Bath BA2 7AY, United Kingdom |
We consider the chemical reaction networks and study currents in these systems. Reviewing recent decomposition of rate functionals from large deviation theory for Markov processes, we adapt these results for reaction networks. In particular, we state a suitable generalisation of orthogonality of forces in these systems, and derive an inequality that bounds the free energy loss and Fisher information by the rate functional.
References:
| [1] |
S. Adams, N. Dirr, M. Peletier and J. Zimmer, Large deviations and gradient flows, Philos. Trans. R. Soc. Lond. Ser. A Math. Phys. Eng. Sci., 371 (2013), 17pp.
doi: 10.1098/rsta.2012.0341. |
| [2] |
D. F. Anderson and T. G. Kurtz, Continuous time Markov chain models for chemical reaction networks, in Design and Analysis of Biomolecular Circuits, Springer, NY, 2011, 3–42.
doi: 10.1007/978-1-4419-6766-4_1. |
| [3] |
L. Bertini, A. De Sole, D. Gabrielli, G. Jona-Lasinio and C. Landim,
Macroscopic fluctuation theory, Rev. Modern Phys., 87 (2015), 593-636.
doi: 10.1103/RevModPhys.87.593. |
| [4] |
B. Hilder, M. A. Peletier, U. Sharma and O. Tse,
An inequality connecting entropy distance, Fisher Information and large deviations, Stochastic Process. Appl., 130 (2020), 2596-2638.
doi: 10.1016/j.spa.2019.07.012. |
| [5] |
M. Kaiser, R. L. Jack and J. Zimmer,
Canonical structure and orthogonality of forces and currents in irreversible Markov chains, J. Stat. Phys., 170 (2018), 1019-1050.
doi: 10.1007/s10955-018-1986-0. |
| [6] |
T. G. Kurtz,
Solutions of ordinary differential equations as limits of pure jump Markov processes, J. Appl. Probability, 7 (1970), 49-58.
doi: 10.2307/3212147. |
| [7] |
C. Maes, Frenetic bounds on the entropy production, Phys. Rev. Lett., 119 (2017).
doi: 10.1103/PhysRevLett.119.160601. |
| [8] |
C. Maes and K. Netočný, Canonical structure of dynamical fluctuations in mesoscopic nonequilibrium steady states, Europhys. Lett. EPL, 82 (2008), 6pp.
doi: 10.1209/0295-5075/82/30003. |
| [9] |
A. Mielke, R. I. A. Patterson, M. A. Peletier and D. R. M. Renger,
Non-equilibrium thermodynamical principles for chemical reactions with mass-action kinetics, SIAM J. Appl. Math., 77 (2017), 1562-1585.
doi: 10.1137/16M1102240. |
| [10] |
A. Mielke, M. A. Peletier and D. R. M. Renger,
On the relation between gradient flows and the large-deviation principle, with applications to Markov chains and diffusion, Potential Anal., 41 (2014), 1293-1327.
doi: 10.1007/s11118-014-9418-5. |
| [11] |
L. Onsager and S. Machlup,
Fluctuations and irreversible processes, Phys. Rev. (2), 91 (1953), 1505-1512.
doi: 10.1103/PhysRev.91.1505. |
| [12] |
R. I. A. Patterson and D. R. M. Renger, Large deviations of jump process fluxes, Math. Phys. Anal. Geom., 22 (2019), 32pp.
doi: 10.1007/s11040-019-9318-4. |
| [13] |
D. R. M. Renger,
Flux large deviations of independent and reacting particle systems, with implications for macroscopic fluctuation theory, J. Stat. Phys., 172 (2018), 1291-1326.
doi: 10.1007/s10955-018-2083-0. |
| [14] |
D. R. M. Renger, Gradient and GENERIC systems in the space of fluxes, applied to reacting particle systems, Entropy, 20 (2018).
doi: 10.3390/e20080596. |
| [15] |
J. Schnakenberg,
Network theory of microscopic and macroscopic behavior of master equation systems, Rev. Modern Phys., 48 (1976), 571-585.
doi: 10.1103/RevModPhys.48.571. |
show all references
References:
| [1] |
S. Adams, N. Dirr, M. Peletier and J. Zimmer, Large deviations and gradient flows, Philos. Trans. R. Soc. Lond. Ser. A Math. Phys. Eng. Sci., 371 (2013), 17pp.
doi: 10.1098/rsta.2012.0341. |
| [2] |
D. F. Anderson and T. G. Kurtz, Continuous time Markov chain models for chemical reaction networks, in Design and Analysis of Biomolecular Circuits, Springer, NY, 2011, 3–42.
doi: 10.1007/978-1-4419-6766-4_1. |
| [3] |
L. Bertini, A. De Sole, D. Gabrielli, G. Jona-Lasinio and C. Landim,
Macroscopic fluctuation theory, Rev. Modern Phys., 87 (2015), 593-636.
doi: 10.1103/RevModPhys.87.593. |
| [4] |
B. Hilder, M. A. Peletier, U. Sharma and O. Tse,
An inequality connecting entropy distance, Fisher Information and large deviations, Stochastic Process. Appl., 130 (2020), 2596-2638.
doi: 10.1016/j.spa.2019.07.012. |
| [5] |
M. Kaiser, R. L. Jack and J. Zimmer,
Canonical structure and orthogonality of forces and currents in irreversible Markov chains, J. Stat. Phys., 170 (2018), 1019-1050.
doi: 10.1007/s10955-018-1986-0. |
| [6] |
T. G. Kurtz,
Solutions of ordinary differential equations as limits of pure jump Markov processes, J. Appl. Probability, 7 (1970), 49-58.
doi: 10.2307/3212147. |
| [7] |
C. Maes, Frenetic bounds on the entropy production, Phys. Rev. Lett., 119 (2017).
doi: 10.1103/PhysRevLett.119.160601. |
| [8] |
C. Maes and K. Netočný, Canonical structure of dynamical fluctuations in mesoscopic nonequilibrium steady states, Europhys. Lett. EPL, 82 (2008), 6pp.
doi: 10.1209/0295-5075/82/30003. |
| [9] |
A. Mielke, R. I. A. Patterson, M. A. Peletier and D. R. M. Renger,
Non-equilibrium thermodynamical principles for chemical reactions with mass-action kinetics, SIAM J. Appl. Math., 77 (2017), 1562-1585.
doi: 10.1137/16M1102240. |
| [10] |
A. Mielke, M. A. Peletier and D. R. M. Renger,
On the relation between gradient flows and the large-deviation principle, with applications to Markov chains and diffusion, Potential Anal., 41 (2014), 1293-1327.
doi: 10.1007/s11118-014-9418-5. |
| [11] |
L. Onsager and S. Machlup,
Fluctuations and irreversible processes, Phys. Rev. (2), 91 (1953), 1505-1512.
doi: 10.1103/PhysRev.91.1505. |
| [12] |
R. I. A. Patterson and D. R. M. Renger, Large deviations of jump process fluxes, Math. Phys. Anal. Geom., 22 (2019), 32pp.
doi: 10.1007/s11040-019-9318-4. |
| [13] |
D. R. M. Renger,
Flux large deviations of independent and reacting particle systems, with implications for macroscopic fluctuation theory, J. Stat. Phys., 172 (2018), 1291-1326.
doi: 10.1007/s10955-018-2083-0. |
| [14] |
D. R. M. Renger, Gradient and GENERIC systems in the space of fluxes, applied to reacting particle systems, Entropy, 20 (2018).
doi: 10.3390/e20080596. |
| [15] |
J. Schnakenberg,
Network theory of microscopic and macroscopic behavior of master equation systems, Rev. Modern Phys., 48 (1976), 571-585.
doi: 10.1103/RevModPhys.48.571. |
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