Green's-function reaction dynamics: a particle-based approach for simulating biochemical networks in time and space.

@article{Zon2005GreensfunctionRD,
  title={Green's-function reaction dynamics: a particle-based approach for simulating biochemical networks in time and space.},
  author={Jeroen Sebastiaan van Zon and Pieter Rein ten Wolde},
  journal={The Journal of chemical physics},
  year={2005},
  volume={123 23},
  pages={234910}
}
We have developed a new numerical technique, called Green's-function reaction dynamics (GFRD), that makes it possible to simulate biochemical networks at the particle level and in both time and space. In this scheme, a maximum time step is chosen such that only single particles or pairs of particles have to be considered. For these particles, the Smoluchowski equation can be solved analytically using Green's functions. The main idea of GFRD is to exploit the exact solution of the Smoluchoswki… CONTINUE READING
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