Convergence of methods for coupling of microscopic and mesoscopic reaction-diffusion simulations

DOI10.1016/J.JCP.2015.01.030zbMath1352.65023arXiv1304.7393OpenAlexW2146689624WikidataQ27309988 ScholiaQ27309988MaRDI QIDQ729183

Stefan Hellander, Mark B. Flegg, Radek Erban

Publication date: 20 December 2016

Published in: Journal of Computational Physics (Search for Journal in Brave)

Full work available at URL: https://arxiv.org/abs/1304.7393

zbMATH Keywords

reaction-diffusionmultiscale simulationparticle-based model

Mathematics Subject Classification ID

Particle methods and lattice-gas methods (76M28) Stochastic particle methods (65C35) Probabilistic methods, particle methods, etc. for initial value and initial-boundary value problems involving PDEs (65M75)

Related Items (8)

Stochastic simulations of the Schnakenberg model with spatial inhomogeneities using reactive multiparticle collision dynamics ⋮ Particle-Based Multiscale Modeling of Calcium Puff Dynamics ⋮ Multiscale Simulation of Stochastic Reaction-Diffusion Networks ⋮ Efficient ensemble stochastic algorithms for agent-based models with spatial predator-prey dynamics ⋮ Unnamed Item ⋮ Coarse-graining molecular dynamics: stochastic models with non-Gaussian force distributions ⋮ Multiscale stochastic reaction-diffusion algorithms combining Markov chain models with stochastic partial differential equations ⋮ A hybrid method for micro-mesoscopic stochastic simulation of reaction-diffusion systems

Uses Software

• URDME
• MesoRD
• Smoldyn

Cites Work

• Multiscale simulation of water flow past a \(C_{540}\) fullerene
• Multiscale stochastic reaction-diffusion modeling: application to actin dynamics in filopodia
• Algorithm refinement for stochastic partial differential equations. I: Linear diffusion.
• Multiscale Reaction-Diffusion Algorithms: PDE-Assisted Brownian Dynamics
• Analysis of the Two-Regime Method on Square Meshes
• Coupled Mesoscopic and Microscopic Simulation of Stochastic Reaction-Diffusion Processes in Mixed Dimensions
• Hybrid computations with flux exchange
• Analysis of Brownian Dynamics Simulations of Reversible Bimolecular Reactions
• Simulation of Stochastic Reaction-Diffusion Processes on Unstructured Meshes
• From molecular dynamics to Brownian dynamics

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