RT info:eu-repo/semantics/article
T1 Efficient simulation of stochastic chemical kinetics with the Stochastic Bulirsch-Stoer extrapolation method
A1 Székely, Tamás
A1 Burrage, Kevin
A1 Zygalakis, Konstantinos C
A1 Barrio, Manuel
AB Biochemical systems with relatively low numbers of components must be simulated stochastically in order to capture their inherent noise. Although there has recently been considerable work on discrete stochastic solvers, there is still a need for numerical methods that are both fast and accurate. The Bulirsch-Stoer method is an established method for solving ordinary differential equations that possesses both of these qualities. In this paper, we present the Stochastic Bulirsch-Stoer method, a new numerical method for simulating discrete chemical reaction systems, inspired by its deterministic counterpart. It is able to achieve an excellent efficiency due to the fact that it is based on an approach with high deterministic order, allowing for larger stepsizes and leading to fast simulations. We compare it to the Euler τ-leap, as well as two more …
PB BioMed Central
YR 2014
FD 2014
LK https://uvadoc.uva.es/handle/10324/65823
UL https://uvadoc.uva.es/handle/10324/65823
LA spa
NO BMC Systems Biology, Volume 8, Pages 1-18
DS UVaDOC
RD 28-nov-2024