A multi-time-scale analysis of chemical reaction networks. II: Stochastic systems

DOI10.1007/S00285-016-0980-XzbMATH Open1353.92049arXiv1508.05990OpenAlexW2240819236WikidataQ50698494 ScholiaQ50698494MaRDI QIDQ728539FDOQ728539

Authors: Xingye Kan, Chang Hyeong Lee, Hans G. Othmer 

Publication date: 20 December 2016

Published in: Journal of Mathematical Biology (Search for Journal in Brave)

Abstract: We consider stochastic descriptions of chemical reaction networks in which there are both fast and slow reactions, and for which the time scales are widely separated. We develop a computational algorithm that produces the generator of the full chemical master equation for arbitrary systems, and show how to obtain a reduced equation that governs the evolution on the slow time scale. This is done by applying a state space decomposition to the full equation that leads to the reduced dynamics in terms of certain projections and the invariant distributions of the fast system. The rates or propensities of the reduced system are shown to be the rates of the slow reactions conditioned on the expectations of fast steps. We also show that the generator of the reduced system is a Markov generator, and we present an efficient stochastic simulation algorithm for the slow time scale dynamics. We illustrate the numerical accuracy of the approximation by simulating several examples. Graph-theoretic techniques are used throughout to describe the structure of the reaction network and the state-space transitions accessible under the dynamics.

Full work available at URL: https://arxiv.org/abs/1508.05990

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zbMATH Keywords

graph theorysingular perturbationstochastic dynamicsreaction networks

Mathematics Subject Classification ID

Applications of graph theory (05C90) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45) Multiple scale methods for ordinary differential equations (34E13) Chemical kinetics in thermodynamics and heat transfer (80A30)

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Cited In (34)

• Averaging Methods for Stochastic Dynamics of Complex Reaction Networks: Description of Multiscale Couplings
• A stochastic analysis of first-order reaction networks
• Layered decomposition for the model order reduction of timescale separated biochemical reaction networks
• Dynamical structures in stochastic chemical reaction systems
• Controllability of impulsive singularly perturbed systems and its application to a class of multiplex networks
• The Status of the QSSA Approximation in Stochastic Simulations of Reaction Networks
• Comparison theorems for stochastic chemical reaction networks
• Perturbation and truncation of probability generating function methods for stiff chemical reactions
• A reduction method for multiple time scale stochastic reaction networks with non-unique equilibrium probability
• Asymptotic analysis of multiscale approximations to reaction networks
• Adaptive aggregation of Markov chains: quantitative analysis of chemical reaction networks
• Decay rates of higher-order norms of solutions to the Navier-Stokes-Landau-Lifshitz system
• A multi-time-scale analysis of chemical reaction networks. I: Deterministic systems
• Fast reactions with non-interacting species in stochastic reaction networks
• A unified framework for limit results in chemical reaction networks on multiple time-scales
• Complex dynamics and spatio-temporal patterns in a network of three distributed chemical reactors with periodical feed switching
• Stochastic enzyme kinetics and the quasi-steady-state reductions: application of the slow scale linear noise approximation à la Fenichel
• Constrained approximation of effective generators for multiscale stochastic reaction networks and application to conditioned path sampling
• A generic framework to coarse-grain stochastic reaction networks by abstract interpretation
• Slow manifold reduction of a stochastic chemical reaction: exploring Keizer's paradox
• A reduction method for multiple time scale stochastic reaction networks
• Separation of time-scales and model reduction for stochastic reaction networks
• Sensitivity analysis for stochastic chemical reaction networks with multiple time-scales
• Stochastic analysis of a chemical reaction with spatial and temporal structures
• Analysis of the Multiplane Method for Stochastic Simulations of Reaction Networks with Fluctuations
• Model reduction of multi-scale chemical Langevin equations
• Noise-induced mixing and multimodality in reaction networks
• Stochastic reduction method for biological chemical kinetics using time-scale separation
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• Dynamic event-triggered fault detection for multi time scale systems: application to grid connected converters
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