Energy consumption and entropy production in a stochastic formulation of BCM learning

4th Young Researcher Meeting, Trieste 2013

De Oliveira, L.R.^1 ; Castellani, G.^1 ; Turchetti, G.^1

Dip. di Fisica, Universitá di Bologna, Viale B. Pichat 6/2, 40126 Bologna, Italy^1

关键词: Biochemical process;    Chemical master equation;    Entropy production;    Equilibrium state;    Non-equilibrium steady state;    Probabilistic dynamics;    Stochastic formulation;    Thermodynamical quantities;   

Others  :  https://iopscience.iop.org/article/10.1088/1742-6596/470/1/012011/pdf
DOI  :  10.1088/1742-6596/470/1/012011

来源: IOP

【 摘 要 】

Biochemical processes in living cells are open systems, therefore they exchange materials with their environment and they consume chemical energy. These processes are molecular-based and for that reason the role of fluctuations can not be ignored and the stochastic description is the most appropriate one. The chemical master equation describes in exact way the probabilistic dynamics of a given discrete set of states and helps us to understand and clarify the differences between closed and open systems. A closed system is related to a condition of detailed balance (DB), i.e. an equilibrium state. After a sufficiently long period, an open system will reach a non-equilibrium steady state (NESS) that is sustained by a flux of external energy. We demonstrate that two implementations of the BCM learning rule (BCM82) and (BCM92) are, respectively, always in DB, and never in DB. We define a one parameter parametrization of the BCM learning rule that interpolates between these two extremes. We compute thermodynamical quantities such as internal energy, free energy (both Helmholtz and Gibbs) and entropy. The entropy variation in the case of open systems (i.e. when DB does not hold) can be divided into internal entropy production and entropy exchanged with surroundings. We show how the entropy variation can be used to find the optimal value (corresponding to increased robustness and stability) for the parameter used in the BCM parametrization. Finally, we use the calculation of the work to drive the system from an initial state to the steady state as the parameter of the plasticity of the system.