An analytical framework for studying small-number effects in catalytic reaction networks: A probability generating function approach to chemical master equations

M Nakagawa, Y Togashi - Frontiers in Physiology, 2016 - frontiersin.org
Cell activities primarily depend on chemical reactions, especially those mediated by
enzymes, and this has led to these activities being modeled as catalytic reaction networks …

[PDF][PDF] Fast probability generating function method for stochastic chemical reaction networks

P Kim, CH Lee - … in Mathematical and in Computer Chemistry, 2014 - match.pmf.kg.ac.rs
Chemical master equations of the stochastic reaction network can be reformulated into a
partial differential equation (PDE) of a probability generating function (PGF). Such PDEs are …

Splitting nodes and linking channels: A method for assembling biocircuits from stochastic elementary units

C Ferwerda, O Lipan - Physical Review E, 2016 - APS
Akin to electric circuits, we construct biocircuits that are manipulated by cutting and
assembling channels through which stochastic information flows. This diagrammatic …

[PDF][PDF] AN ERROR ESTIMATION FOR MOMENT CLOSURE APPROXIMATION OF CHEMICAL REACTION SYSTEMS

KH Kim, CH Lee - Journal of the Korean Society for Industrial and …, 2017 - koreascience.kr
The moment closure method is an approximation method to compute the moments for
stochastic models of chemical reaction systems. In this paper, we develop an analytic …

Perturbation and truncation of probability generating function methods for stiff chemical reactions

S Jeong, P Kim, CH Lee - Journal of Applied Mathematics, 2015 - Wiley Online Library
One can reformulate chemical master equations of the stochastic reaction network into a
partial differential equation (PDE) of a probability generating function (PGF). In this paper …

[PDF][PDF] Double Truncation Method for Simulation of Stochastic Chemical Reaction Networks

S Jeong - 2014 - core.ac.uk
Abstract We develop Double Truncation Method (DTM) to understand the stochasticity of
chemical reaction network on the mesoscopic scale. The Chemical Master Equation (CME) …

非一様な多機能触媒反応系における少数分子成分効果(ランダム力学系理論とその応用)

中川正基, 大仲修平, 羅志偉… - 数理解析研究所 …, 2017 - repository.kulib.kyoto-u.ac.jp
本稿では触媒反応ネットワークにおける少数分子成分効果について考える. 前半 (第 2 節) では,
少数分子成分効果の一例として, 文献 [1] で明らかにされた, 各触媒の多機能性に偏りのある触媒 …