Stochastic reaction-diffusion simulation with MesoRD

By Johan Hattne, David Fange, Johan Elf. Bioinform., 2005

346 citations recorded by the source corpus.

Subfields: Molecular Biology, Physical and Theoretical Chemistry, Statistical and Nonlinear Physics

View Paper: https://www.semanticscholar.org/paper/8bbb2af387a69ec41c14ee7a72c35cb68588dc30

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

1. Adam P. Arkin
2. Roger Brent
3. Steven S. Andrews
4. Nathan J. Addy
5. S. Chapman
6. Radek Erban
7. François Nédélec
8. Dietrich Foethke

In Physical and Theoretical Chemistry

1. S. Chapman
2. Radek Erban
3. François Nédélec
4. Dietrich Foethke

In Statistical and Nonlinear Physics

1. S. Chapman
2. Adam P. Arkin
3. Radek Erban
4. François Nédélec
5. Dietrich Foethke

Citations in the corpus

• Detailed Simulations of Cell Biology with Smoldyn 2.1 (2010, background): “Spatial Gillespie MesoRD [68] coarse lattice event-based populations”
• Stochastic modelling of reaction–diffusion processes: algorithms for bimolecular reactions (2009, methodology): “Diffusion is modelled as jumps of molecules between neighbouring compartments [24, 27].”
• Collective Langevin dynamics of flexible cytoskeletal fibers (2007, methodology): “the Gillespie algorithms [34] or even spatially resolved methods [35]) without extensive modifications.”