Mesoscopic Modeling of Random Walk and Reactions in Crowded Media

Abstract

We develop a mesoscopic modeling framework for diffusion in a crowded environment, particularly targeting applications in the modeling of living cells. Through homogenization techniques we effectively coarse-grain a detailed microscopic description into a previously developed internal state diffusive framework. The observables in the mesoscopic model correspond to solutions of macroscopic partial differential equations driven by stochastically varying diffusion fields in space and time. Analytical solutions and numerical experiments illustrate the framework.

References in corpus (6)

• Anomalous transport in the crowded world of biological cells
• Brownian yet non-Gaussian diffusion: from superstatistics to subordination of diffusing diffusivities
• "Diffusing diffusivity": A model for anomalous and "anomalous yet Brownian" diffusion
• Reaction Front in an A+B -> C Reaction-Subdiffusion Process
• The Localization Transition of the Two-Dimensional Lorentz Model
• Diffusion of tagged particles in a crowded medium

Cited by in corpus (5)

• Molecular dynamics of open systems: construction of a mean-field particle reservoir
• A probabilistic framework for particle-based reaction-diffusion dynamics using classical Fock space representations
• Diffusion-influenced reaction rates in the presence of pair interactions
• New homogenization approaches for stochastic transport through heterogeneous media
• An Unstructured Mesh Reaction-Drift-Diffusion Master Equation with Reversible Reactions