Efficient Formulations for Exact Stochastic Simulation of Chemical Systems

2011 ◽  
Vol 8 (1) ◽  
pp. 27-35 ◽  
Author(s):  
Sean Mauch ◽  
Mark Stalzer
Keyword(s):  
Stochastic Simulation ◽  
Chemical Systems ◽  
Exact Stochastic Simulation

scholarly journals Accurate Stochastic Simulation Methods for Homogeneous Biochemical Networks

2021 ◽  
Author(s):  
Farida Ansari
Keyword(s):  
Master Equation ◽  
Stochastic Simulation ◽  
Growth Factor Receptor ◽  
Stochastic Simulation Algorithm ◽  
Chemical Master Equation ◽  
Biochemical Networks ◽  
Random Time Change ◽  
Simulation Strategy ◽  
Epidermal Growth ◽  
Exact Stochastic Simulation

Stochastic models of intracellular processes are subject of intense research today. For homogeneous systems, these models are based on the Chemical Master Equation, which is a discrete stochastic model. The Chemical Master Equation is often solved numerically using Gillespie’s exact stochastic simulation algorithm. This thesis studies the performance of another exact stochastic simulation strategy, which is based on the Random Time Change representation, and is more efficient for sensitivity analysis, compared to Gillespie’s algorithm. This method is tested on several models of biological interest, including an epidermal growth factor receptor model.

Accelerated Stochastic Simulation of Large Chemical Systems

2007 ◽  
Vol 24 (9) ◽  
pp. 2509-2512 ◽  
Author(s):  
Chen Xiao ◽  
Ao Ling
Keyword(s):  
Stochastic Simulation ◽  
Chemical Systems

scholarly journals Fast Exact Stochastic Simulation Algorithms Using Partial Propensities

2010 ◽  
Author(s):  
Rajesh Ramaswamy ◽  
Ivo F. Sbalzarini ◽  
Theodore E. Simos ◽  
George Psihoyios ◽  
Ch. Tsitouras
Keyword(s):  
Stochastic Simulation ◽  
Stochastic Simulation Algorithms ◽  
Simulation Algorithms ◽  
Exact Stochastic Simulation
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