ArticleJournal of computational physics2015
Convergence of methods for coupling of microscopic and mesoscopic reaction-diffusion simulations.
Article in Journal of computational physics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Multi-Grid Reaction-Diffusion Master Equation: Applications to Morphogen Gradient Modelling.Bulletin of mathematical biology · 2024Article
- Incorporating domain growth into hybrid methods for reaction-diffusion systems.Journal of the Royal Society, Interface · 2021Article
- The blending region hybrid framework for the simulation of stochastic reaction-diffusion processes.Journal of the Royal Society, Interface · 2020Article
- Hierarchical algorithm for the reaction-diffusion master equation.The Journal of chemical physics · 2020Article
- Coarse-graining molecular dynamics: stochastic models with non-Gaussian force distributions.Journal of mathematical biology · 2020Article
- Stochastic self-tuning hybrid algorithm for reaction-diffusion systems.The Journal of chemical physics · 2019Article
- Multiscale Stochastic Reaction-Diffusion Algorithms Combining Markov Chain Models with Stochastic Partial Differential Equations.Bulletin of mathematical biology · 2019Article
- Multi-resolution dimer models in heat baths with short-range and long-range interactions.Interface focus · 2019Article
- The auxiliary region method: a hybrid method for coupling PDE- and Brownian-based dynamics for reaction-diffusion systems.Royal Society open science · 2018Article
- Spatially extended hybrid methods: a review.Journal of the Royal Society, Interface · 2018Review
- Mesoscopic-microscopic spatial stochastic simulation with automatic system partitioning.The Journal of chemical physics · 2017Article
- Reaction rates for reaction-diffusion kinetics on unstructured meshes.The Journal of chemical physics · 2017Article
- Coupling volume-excluding compartment-based models of diffusion at different scales: Voronoi and pseudo-compartment approaches.Journal of the Royal Society, Interface · 2016Article
- Hybrid finite element and Brownian dynamics method for charged particles.The Journal of chemical physics · 2016Article
- Hybrid approaches for multiple-species stochastic reaction-diffusion models.Journal of computational physics · 2015Article
- The pseudo-compartment method for coupling partial differential equation and compartment-based models of diffusion.Journal of the Royal Society, Interface · 2015Article
- On the mathematical modeling of wound healing angiogenesis in skin as a reaction-transport process.Frontiers in physiology · 2015Review
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Authors and funding
3 authors.
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Abstract
In this paper, three multiscale methods for coupling of mesoscopic (compartment-based) and microscopic (molecular-based) stochastic reaction-diffusion simulations are investigated. Two of the three methods that will be discussed in detail have been previously reported in the literature; the two-regime method (TRM) and the compartment-placement method (CPM). The third method that is introduced and analysed in this paper is called the ghost cell method (GCM), since it works by constructing a "ghost cell" in which molecules can disappear and jump into the compartment-based simulation. Presented is a comparison of sources of error. The convergent properties of this error are studied as the time step Δ
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