Title: Stochastic lumping analysis for linear kinetics and its application to the fluctuation relations between hierarchical kinetic networks
Authors: Deng, De-Ming
Chang, Cheng-Hung
Institute of Physics
Issue Date: 14-May-2015
Abstract: Conventional studies of biomolecular behaviors rely largely on the construction of kinetic schemes. Since the selection of these networks is not unique, a concern is raised whether and under which conditions hierarchical schemes can reveal the same experimentally measured fluctuating behaviors and unique fluctuation related physical properties. To clarify these questions, we introduce stochasticity into the traditional lumping analysis, generalize it from rate equations to chemical master equations and stochastic differential equations, and extract the fluctuation relations between kinetically and thermodynamically equivalent networks under intrinsic and extrinsic noises. The results provide a theoretical basis for the legitimate use of low-dimensional models in the studies of macromolecular fluctuations and, more generally, for exploring stochastic features in different levels of contracted networks in chemical and biological kinetic systems. (C) 2015 AIP Publishing LLC.
URI: http://dx.doi.org/10.1063/1.4919952
ISSN: 0021-9606
DOI: 10.1063/1.4919952
Volume: 142
Issue: 18
Appears in Collections:Articles