118 citations · 324 across the 21 of their papers we have counts for
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Hierarchical Reaction-Diffusion Master Equation
Stefan Hellander, Andreas Hellander
We have developed an algorithm coupling mesoscopic simulations on different levels in a hierarchy of Cartesian meshes. Based on the multiscale nature of the chemical reactions, som…
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…
Robustness analysis of spatiotemporal models in the presence of extrinsic fluctuations
Andreas Hellander, Jan Klosa, Per Lötstedt +1
We analyze the governing partial differential equations of a model of pole-to-pole oscillations of the MinD protein in a bacterial cell. The sensitivity to extrinsic noise in the p…
Analysis and design of jump coefficients in discrete stochastic diffusion models
Lina Meinecke, Stefan Engblom, Andreas Hellander +1
In computational system biology, the mesoscopic model of reaction-diffusion kinetics is described by a continuous time, discrete space Markov process. To simulate diffusion stochas…
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…