77 citations · 164 across the 9 of their papers we have counts for
6 papers · 1 filter
Mesoscopic-microscopic spatial stochastic simulation with automatic system partitioning
Stefan Hellander, Andreas Hellander, Linda Petzold
The reaction-diffusion master equation (RDME) is a model that allows for efficient on-lattice simulation of spatially resolved stochastic chemical kinetics. Compared to off-lattice…
Reaction rates for reaction-diffusion kinetics on unstructured meshes
Stefan Hellander, Linda Petzold
The reaction-diffusion master equation is a stochastic model often utilized in the study of biochemical reaction networks in living cells. It is applied when the spatial distributi…
Reaction rates for a generalized reaction-diffusion master equation
Stefan Hellander, Linda Petzold
It has been established that there is an inherent limit to the accuracy of the reaction-diffusion master equation. Specifically, there exists a fundamental lower bound on the mesh…
Reaction rates for mesoscopic reaction-diffusion kinetics
Stefan Hellander, Andreas Hellander, Linda Petzold
The mesoscopic reaction-diffusion master equation (RDME) is a popular modeling framework, frequently applied to stochastic reaction-diffusion kinetics in systems biology. The RDME…
Local error estimates for adaptive simulation of the Reaction-Diffusion Master Equation via operator splitting
Andreas Hellander, Michael Lawson, Brian Drawert +1
The efficiency of exact simulation methods for the reaction-diffusion master equation (RDME) is severely limited by the large number of diffusion events if the mesh is fine or if d…
On the Reaction Diffusion Master Equation in the Microscopic Limit
Stefan Hellander, Andreas Hellander, Linda Petzold
Stochastic modeling of reaction-diffusion kinetics has emerged as a powerful theoretical tool in the study of biochemical reaction networks. Two frequently employed models are the…