title: Variable time-stepping in the pathwise numerical solution of the chemical Langevin equation.
abstract: Stochastic modeling is essential for an accurate description of the biochemical network dynamics at the level of a single cell. Biochemically reacting systems often evolve on multiple time-scales, thus their stochastic mathematical models manifest stiffness. Stochastic models which, in addition, are stiff and computationally very challenging, therefore the need for developing effective and accurate numerical methods for approximating their solution. An important stochastic model of well-stirred biochemical systems is the chemical Langevin Equation. The chemical Langevin equation is a system of stochastic differential equation with multidimensional non-commutative noise. This model is valid in the regime of large molecular populations, far from the thermodynamic limit. In this paper, we propose a variable time-stepping strategy for the numerical solution of a general chemical Langevin equation, which applies for any level of randomness in the system. Our variable stepsize method allows arbitrary values of the time-step. Numerical results on several models arising in applications show significant improvement in accuracy and efficiency of the proposed adaptive scheme over the existing methods, the strategies based on halving/doubling of the stepsize and the fixed step-size ones.
authors.affiliation: Department of Mathematics, Ryerson University, Toronto, Ontario, M5B 2K3, Canada.
authors.forename: Silvana
authors.initials: S
authors.lastname: Ilie
mesh_terms: D000465:Algorithms; D003198:Computer Simulation; D007700:Kinetics; D016014:Linear Models; D008956:Models, Chemical; D013269:Stochastic Processes