StochKit2: Software for discrete stochastic simulation of biochemical systems with events

Bioinformatics

Volumn 27, Issue 17, 2011, Pages 2457-2458

  Sanft, Kevin R ^a   Wu, Sheng ^a   Roh, Min ^a   Fu, Jin ^a   Lim, Rone Kwei ^a   Petzold, Linda R ^a  

^a University of California   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; BIOCHEMISTRY; BIOLOGICAL MODEL; COMPUTER PROGRAM; COMPUTER SIMULATION; STATISTICS;

ALGORITHMS; BIOCHEMICAL PROCESSES; COMPUTER SIMULATION; MODELS, BIOLOGICAL; SOFTWARE; STOCHASTIC PROCESSES;

EID: 80051950768     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btr401     Document Type: Article

References (7)

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2. Cao,Y. et al. (2006) Efcient step size selection for the tau-leaping simulation method. J. Chem. Phys., 124, 044109.
3. Gillespie,D.T. (1977) Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem., 81, 2340-2361.
4. Gillespie,D.T. (2001) Approximate accelerated stochastic simulation of chemically reacting systems. J. Chem. Phys., 115, 1716-1733.
5. Hucka,M., et al. (2003) The Systems Biology Markup Language (SBML): a medium for representation and exchange of biochemical network models. Bioinformatics, 19, 524-531.
6. Kwei,E., et al. (2009) Model-based therapeutic target discrimination using stochastic simulation and robustness analysis in an insulin signaling pathway. In Proceedings of the 2009 FOSBE Conference. Denver, Colorado, USA.
7. Slepoy,A. et al. (2008) A constant-time kinetic Monte Carlo algorithm for simulations of large biochemical reaction networks. J. Chem. Phys., 128, 205101.