Stochastic modelling of reaction-diffusion processes /

Bibliographic Details
Main Authors: Erban, Radek (Author), Chapman, Jon (Author)
Corporate Author: Cambridge University Press
Format: eBook
Language:English
Published: Cambridge ; New York, NY : Cambridge University Press, [2020]
Series:Cambridge texts in applied mathematics.
Subjects:
Online Access:Connect to the full text of this electronic book

MARC

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245 1 0 |a Stochastic modelling of reaction-diffusion processes /  |c Radek Erban (University of Oxford), S. Jonathan Chapman (University of Oxford). 
264 1 |a Cambridge ;  |a New York, NY :  |b Cambridge University Press,  |c [2020] 
264 4 |c ©2020 
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504 |a Includes bibliographical references and index. 
588 0 |a Online resource; title from digital title page (viewed on November 26, 2019). 
505 0 |a Cover -- Half-title page -- Series page -- Title page -- Copyright page -- Contents -- Preface -- 1 Stochastic Simulation of Chemical Reactions -- 1.1 Stochastic Simulation of Degradation -- 1.2 Stochastic Simulation of Production and Degradation -- 1.3 Higher-Order Chemical Reactions -- 1.4 Stochastic Simulation of Dimerization -- 1.5 Gillespie Algorithm -- Exercises -- 2 Deterministic versus Stochastic Modelling -- 2.1 Systems with Multiple Favourable States -- 2.2 Self-Induced Stochastic Resonance -- 2.3 Stochastic Focusing -- 2.4 Designing Stochastic Chemical Systems -- Exercises 
505 8 |a 3 Stochastic Differential Equations -- 3.1 A Computational Definition of SDE -- 3.2 Examples of SDEs -- 3.3 Fokker-Planck Equation -- 3.4 Boundary Conditions on the Fokker-Planck Equation -- 3.5 Kolmogorov Backward Equation -- 3.6 SDEs with Multiple Favourable States -- 3.7 Chemical Fokker-Planck Equation -- 3.8 Analysis of Problem from Section 2.1 -- 3.9 Analysis of Problem from Section 2.2 -- Exercises -- 4 Diffusion -- 4.1 Diffusion Modelled by SDEs -- 4.2 Compartment-Based Approach to Diffusion -- 4.3 Diffusion and Velocity-Jump Processes -- 4.4 Diffusion to Adsorbing Surfaces 
505 8 |a 4.5 Reactive Boundary Conditions -- 4.6 Einstein-Smoluchowski Relation -- Exercises -- 5 Efficient Stochastic Modelling of Chemical Reactions -- 5.1 A Simple Multiscale Problem -- 5.2 Multiscale SSA with Partial Equilibrium Assumption -- 5.3 Multiscale Modelling -- 5.4 First-Reaction SSA -- 5.5 Exact Efficient SSAs -- Exercises -- 6 Stochastic Reaction-Diffusion Models -- 6.1 A Compartment-Based Reaction-Diffusion Algorithm -- 6.2 A Reaction-Diffusion SSA Based on the SDE Model of Diffusion -- 6.3 Compartment-Based SSA for Higher-Order Reactions -- 6.4 A Choice of Compartment Size h 
505 8 |a 6.5 Molecular-Based Approaches for Second-Order Reactions -- 6.6 Reaction Radius and Reaction Probability -- 6.7 Modelling Reversible Reactions -- 6.8 Biological Pattern Formation -- Exercises -- 7 SSAs for Reaction-Diffusion-Advection Processes -- 7.1 SSAs for Diffusion-Advection Processes -- 7.2 Reaction-Diffusion-Advection SSAs -- 7.3 Bacterial Chemotaxis -- 7.4 Collective Behaviour of Locusts -- 7.5 Ions and Ion Channels -- 7.6 Metropolis-Hastings Algorithm -- Exercises -- 8 Microscopic Models of Brownian Motion -- 8.1 One-Particle Solvent Model -- 8.2 Generalized Langevin Equation 
505 8 |a 8.3 Solvent as Harmonic Oscillators -- 8.4 Solvent as Points Colliding with the Diffusing Particle -- 8.5 Forces Between Atoms and Molecules -- 8.6 Molecular Dynamics -- Exercises -- 9 Multiscale and Multi-Resolution Methods -- 9.1 Coupling SDE-Based and Compartment-Based Models -- 9.2 Coupling Molecular Dynamics with Langevin Dynamics -- 9.3 Multi-Resolution Molecular and Brownian Dynamics -- Exercises -- Appendix -- Appendix A Deterministic Modelling of Chemical Reactions -- Appendix B Discrete Probability Distributions -- Appendix C Continuous Probability Distributions -- References -- Index 
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