Circuit theory for chemical reaction networks

F Avanzini, N Freitas, M Esposito - Physical Review X, 2023 - APS
We lay the foundation of a circuit theory for chemical reaction networks. Chemical reactions
are grouped into chemical modules solely characterized by their current-concentration …

Information thermodynamics for deterministic chemical reaction networks

E Penocchio, F Avanzini, M Esposito - The Journal of Chemical …, 2022 - pubs.aip.org
Information thermodynamics relates the rate of change of mutual information between two
interacting subsystems to their thermodynamics when the joined system is described by a …

Nonideal Reaction-Diffusion Systems: Multiple Routes to Instability

T Aslyamov, F Avanzini, É Fodor, M Esposito - Physical Review Letters, 2023 - APS
We develop a general classification of the nature of the instabilities yielding spatial
organization in open nonideal reaction-diffusion systems, based on linear stability analysis …

Free-energy transduction in chemical reaction networks: From enzymes to metabolism

A Wachtel, R Rao, M Esposito - The Journal of Chemical Physics, 2022 - pubs.aip.org
We provide a rigorous definition of free-energy transduction and its efficiency in arbitrary—
linear or nonlinear—open chemical reaction networks (CRNs) operating at a steady state …

Calcium oscillations optimize the energetic efficiency of mitochondrial metabolism

V Voorsluijs, F Avanzini, G Falasco, M Esposito… - Iscience, 2024 - cell.com
Energy transduction is central to living organisms, but the impact of enzyme regulation and
signaling on its thermodynamic efficiency is generally overlooked. Here, we analyze the …

Characterizing the conditions for indefinite growth in open chemical reaction networks

SG Marehalli Srinivas, F Avanzini, M Esposito - Physical Review E, 2024 - APS
The thermodynamic and dynamical conditions necessary to observe indefinite growth in
homogeneous open chemical reaction networks (CRNs) satisfying mass action kinetics are …

Thermodynamics of growth in open chemical reaction networks

SG Marehalli Srinivas, F Avanzini, M Esposito - Physical Review Letters, 2024 - APS
We identify the thermodynamic conditions necessary to observe indefinite growth in
homogeneous open chemical reaction networks (CRNs) satisfying mass action kinetics. We …

Dissipation in Hydrodynamics from Micro-to Macroscale: Wisdom from Boltzmann and Stochastic Thermodynamics

D Forastiere, F Avanzini, M Esposito - New Journal of Physics, 2023 - iopscience.iop.org
We show that macroscopic irreversible thermodynamics for viscous fluids can be derived
from exact information-theoretic thermodynamic identities valid at the microscale. Entropy …

Deficiency, kinetic invertibility, and catalysis in stochastic chemical reaction networks

SG Marehalli Srinivas, M Polettini, M Esposito… - The Journal of …, 2023 - pubs.aip.org
Stochastic chemical processes are described by the chemical master equation satisfying the
law of mass-action. We first ask whether the dual master equation, which has the same …

Out-of-equilibrium thermodynamics of autocatalytic networks

A Despons - arXiv preprint arXiv:2404.03347, 2024 - arxiv.org
The purpose of this work is to clarify how the stoichiometric trait of autocatalytic networks,
namely their absence of a conservation law, shapes their non-equilibrium behavior. To do …