A new algorithm, called boosted hybrid method, is proposed for the simulation of chemical reaction systems with scale-separation in time and disparity in species population. For such stiff systems, the algorithm can automatically identify scale-separation in time and slow down the fast reactions while maintaining a good approximation to the original effective dynamics. This technique is called boosting. As disparity in species population may still exist in the boosted system, we propose a hybrid strategy based on coarse-graining methods, such as the tau-leaping method, to accelerate the reactions among large population species. The combination of the boosting strategy and the hybrid method allow for an efficient and adaptive simulation of c...
In cellular reaction systems, events often happen at different time and abundance scales. It is pos...
Well-mixed stochastic chemical kinetics are properly modeled by the chemical master equation (CME) a...
Cellular reaction systems are often multiscale in nature due to wide variation in the species abunda...
A new algorithm, called boosted hybrid method, is proposed for the simulation of chemical reaction s...
A new algorithm, called boosted hybrid method, is proposed for the simulation of chemical reaction s...
Four major approaches model the time dependent behavior of chemical reaction systems: ordinary diffe...
Biochemical processes in living cells are comprised of reactions with vastly varying speeds and mole...
With the observation that stochasticity is important in biological systems, chemical kinetics have b...
Cellular reactions have a multi-scale nature in the sense that the abundance of molecular species an...
Stochastic models are widely used in the simulation of biochemical systems at a cellular level. For ...
This PhD thesis deals with the numerical simulation of chemical reaction systems. Chemical reaction ...
In this paper we give an overview of some very recent work, as well as presenting a new approach, on...
Abstract. Well stirred chemical reaction systems which involve small numbers of mole-cules for some ...
We present an effective procedure for selecting the stepsize in the binomial $\tau$-leap method, whi...
Spatial distributions characterize the evolution of reaction-diffusion models of several physical, c...
In cellular reaction systems, events often happen at different time and abundance scales. It is pos...
Well-mixed stochastic chemical kinetics are properly modeled by the chemical master equation (CME) a...
Cellular reaction systems are often multiscale in nature due to wide variation in the species abunda...
A new algorithm, called boosted hybrid method, is proposed for the simulation of chemical reaction s...
A new algorithm, called boosted hybrid method, is proposed for the simulation of chemical reaction s...
Four major approaches model the time dependent behavior of chemical reaction systems: ordinary diffe...
Biochemical processes in living cells are comprised of reactions with vastly varying speeds and mole...
With the observation that stochasticity is important in biological systems, chemical kinetics have b...
Cellular reactions have a multi-scale nature in the sense that the abundance of molecular species an...
Stochastic models are widely used in the simulation of biochemical systems at a cellular level. For ...
This PhD thesis deals with the numerical simulation of chemical reaction systems. Chemical reaction ...
In this paper we give an overview of some very recent work, as well as presenting a new approach, on...
Abstract. Well stirred chemical reaction systems which involve small numbers of mole-cules for some ...
We present an effective procedure for selecting the stepsize in the binomial $\tau$-leap method, whi...
Spatial distributions characterize the evolution of reaction-diffusion models of several physical, c...
In cellular reaction systems, events often happen at different time and abundance scales. It is pos...
Well-mixed stochastic chemical kinetics are properly modeled by the chemical master equation (CME) a...
Cellular reaction systems are often multiscale in nature due to wide variation in the species abunda...