The numerical stability of leaping methods for stochastic simulation of chemically reacting systems

Journal of Chemical Physics

Volumn 121, Issue 24, 2004, Pages 12169-12178

  Cao, Yang ^a   Petzold, Linda R ^a   Rathinam, Muruhan ^b   Gillespie, Daniel T ^c  

^a University of California   (United States)

^b UNIVERSITY OF MARYLAND   (United States)

^c Dan T Gillespie Consulting   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHEMICALLY REACTING SYSTEMS; LEAPING METHODS; STOCHASTIC SIMULATION;

CHEMICAL REACTIONS; COMPUTER SIMULATION; STOCHASTIC CONTROL SYSTEMS;

CONVERGENCE OF NUMERICAL METHODS;

EID: 22944477377     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.1823412     Document Type: Article

References (21)

1. A. Arkin, J. Ross, and H. H. McAdams, Genetics 149, 1633 (1998).
2. N. Fedoroff and W. Fontana, Science 297, 1129 (2002).
3. H. H. McAdams and A. Arkin, Proc. Natl. Acad. Sci. U.S.A. 94, 814 (1997).
4. H. H. McAdams and A. Arkin, Trends Genet. 15, 65 (1999).
5. D. Gillespie, J. Comput. Phys. 22, 403 (1976).
6. D. Gillespie, J. Phys. Chem. 81, 2340 (1977).
7. D. Gillespie, J. Chem. Phys. 115, 1716 (2001).
8. E. Haseltine and J. Rawlings, J. Chem. Phys. 117, 6959 (2002).
9. T. Mattheyses and M. Simmons, Bioinformatics 20, 316 (2004).
10. Y. Cao, D. Gillespie, and L. Petzold, J. Chem. Phys. (to be published).
11. Y. Cao, D. Gillespie, and L. Petzold (unpublished).
12. K. E. Brenan, S. L. Campbell, and L. R. Petzold, Numerical Solution of Initial-Value Problems in Differential-Algebraic Equations (SIAM, Philadelphia, PA, 1996).
13. M. Rathinam, L. Petzold, Y. Cao, and D. Gillespie, J. Chem. Phys. 119, 12784 (2003).
14. M. Rathinam, L. Petzold, Y. Cao, and D. Gillespie, J. Chem. Phys (to be published).
15. Y. Cao and L. Petzold (unpublished).
16. D. Gillespie, J. Phys. Chem. A 106, 5063 (2002).
17. M. Gibson and J. Bruck, J. Phys. Chem. A 104, 1876 (2000).
18. Y. Cao, H. Li, and L. Petzold, J. Chem. Phys. 121, 4059 (2004).
19. D. Gillespie, J. Chem. Phys. 113, 297 (2000).
20. S. Ross, Introduction to Probability Models, 8th ed. (Academic, New York, 2002).
21. L. Breiman, Probability (SIAM, Philadelphia, PA, 1992).