Multiscale stochastic reaction-diffusion algorithms combining Markov chain models with stochastic partial differential equations
DOI10.1007/S11538-019-00613-0zbMATH Open1422.92055OpenAlexW2948192475WikidataQ92529893 ScholiaQ92529893MaRDI QIDQ2325580FDOQ2325580
Authors: Hye-Won Kang, Radek Erban 
Publication date: 26 September 2019
Published in: Bulletin of Mathematical Biology (Search for Journal in Brave)
Full work available at URL: https://doi.org/10.1007/s11538-019-00613-0
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Markov chainstochastic partial differential equationsmultiscale modellingchemical reaction networksGillespie algorithmstochastic reaction-diffusion systems
Applications of continuous-time Markov processes on discrete state spaces (60J28) Numerical analysis or methods applied to Markov chains (65C40) Systems biology, networks (92C42) PDEs with randomness, stochastic partial differential equations (35R60) Computational methods for problems pertaining to biology (92-08) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)
Cites Work
- A stochastic analysis of first-order reaction networks
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- Handbook of stochastic methods for physics, chemistry and the natural sciences.
- Strong approximation theorems for density dependent Markov chains
- Multiscale stochastic simulation algorithm with stochastic partial equilibrium assumption for chemically reacting systems
- Hybrid approaches for multiple-species stochastic reaction-diffusion models
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- Multiscale reaction-diffusion algorithms: PDE-assisted Brownian dynamics
- Multiscale stochastic reaction-diffusion modeling: application to actin dynamics in filopodia
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- Title not available (Why is that?)
- Spatially adaptive stochastic numerical methods for intrinsic fluctuations in reaction-diffusion systems
- From molecular dynamics to Brownian dynamics
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- Jump-Diffusion Approximation of Stochastic Reaction Dynamics: Error Bounds and Algorithms
- Hybrid stochastic simulations of intracellular reaction-diffusion systems
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- On the use of reverse Brownian motion to accelerate hybrid simulations
- ADM-CLE approach for detecting slow variables in continuous time Markov chains and dynamic data
- Coupling all-atom molecular dynamics simulations of ions in water with Brownian dynamics
- Reduction for stochastic biochemical reaction networks with multiscale conservations
Cited In (13)
- Multiscale reaction-diffusion algorithms: PDE-assisted Brownian dynamics
- Stochastic simulation of biochemical systems: in memory of Dan T. Gillespie's contributions
- A hybrid method for micro-mesoscopic stochastic simulation of reaction-diffusion systems
- Convergence of methods for coupling of microscopic and mesoscopic reaction-diffusion simulations
- Extreme diffusion with point-sink killing fields: application to fast calcium signaling at synapses
- Multiscale stochastic simulation algorithm with stochastic partial equilibrium assumption for chemically reacting systems
- Effects of different discretisations of the Laplacian upon stochastic simulations of reaction-diffusion systems on both static and growing domains
- Hybrid approaches for multiple-species stochastic reaction-diffusion models
- Multiscale stochastic reaction-diffusion modeling: application to actin dynamics in filopodia
- On the use of reverse Brownian motion to accelerate hybrid simulations
- Multi-grid reaction-diffusion master equation: applications to morphogen gradient modelling
- Efficient stochastic simulation of simultaneous reaction and diffusion in a gas-liquid interface
- Analysis of the two-regime method on square meshes
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