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Multiresolution stochastic simulations of reaction-diffusion processes

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Bayati, Basil [ETH Zurich] Chatelain, Philippe [UCL] Koumoutsakos, Petros [ETH Zurich]

Stochastic simulations of reaction-diffusion processes are used extensively for the modeling of complex systems in areas ranging from biology and social sciences to ecosystems and materials processing. These processes often exhibit disparate scales that render their simulation prohibitive even for massive computational resources. The problem is resolved by introducing a novel stochastic multiresolution method that enables the efficient simulation of reaction-diffusion processes as modeled by many-particle systems. The proposed method quantifies and efficiently handles the associated stiffness in simulating the system dynamics and its computational efficiency and accuracy are demonstrated in simulations of a model problem described by the Fisher-Kolmogorov equation. The method is general and can be applied to other many-particle models of physical processes.

Document type Article de périodique (Journal article) – Article de recherche
Publication date 2008
Language Anglais
Journal information "Physical Chemistry Chemical Physics" - Vol. 10, p. 5963-5966 (2008)
Peer reviewed yes
Publisher Royal Society of Chemistry
issn 1463-9076
e-issn 1463-9084
Publication status Publié
Affiliation UCL - SST/IMMC/TFL - Thermodynamics and fluid mechanics
Links
  1. Turing, Philos. Trans. R. Soc. London, Ser. B, 1, 1 (1952)
  2. Helbing, Rev. Mod. Phys., 73, 1067 (2001)
  3. Copel, Phys. Rev. Lett., 63, 632 (1989)
  4. Dietz, J. R. Stat. Soc., Ser. A, 130, 505 (1967)
  5. Bortz, J. Comput. Phys., 17, 10 (1975)
  6. Gillespie, J. Comput. Phys., 22, 403 (1976)
  7. Hattne, Bioinformatics, 21, 2923 (2005)
  8. Rodriguez, Bioinformatics, 22, 1895 (2006)
  9. Bernstein David, Simulating mesoscopic reaction-diffusion systems using the Gillespie algorithm, 10.1103/physreve.71.041103
  10. Rossinelli, Chem. Phys. Lett., 451, 136 (2008)
  11. Kevrekidis, AIChE J., 50, 1346 (2004)
  12. Koumoutsakos, Annu. Rev. Fluid Mech., 37, 457 (2005)
  13. Hellander, J. Comput. Phys., 227, 100 (2007)
  14. Berger, J. Comput. Phys., 53, 484 (1984)
  15. Berger, J. Comput. Phys., 82, 64 (1989)
  16. Gillespie, J. Chem. Phys., 115, 1716 (2001)
  17. Auger, J. Chem. Phys., 125, 084103 (2006)
  18. FISHER R. A., THE WAVE OF ADVANCE OF ADVANTAGEOUS GENES, 10.1111/j.1469-1809.1937.tb02153.x
  19. Cao, J. Chem. Phys., 126, 224101 (2007)
  20. Rathinam, J. Chem. Phys., 119, 12784 (2003)
  21. Gillespie, J. Phys. Chem., 81, 2340 (1977)
  22. Ablowitz Mark J., Zeppetella Anthony, Explicit solutions of Fisher's equation for a special wave speed, 10.1007/bf02462380
Bibliographic reference Bayati, Basil ; Chatelain, Philippe ; Koumoutsakos, Petros. Multiresolution stochastic simulations of reaction-diffusion processes. In: Physical Chemistry Chemical Physics, Vol. 10, p. 5963-5966 (2008)
Permanent URL http://hdl.handle.net/2078.1/140429