Non-stationary forward flux sampling

Nils B. Becker, Rosalind J. Allen, Pieter Rein ten Wolde

Research output: Contribution to journalArticlepeer-review

Abstract / Description of output

We present a method, Non-Stationary Forward Flux Sampling, that allows efficient simulation of rare events in both stationary and non-stationary stochastic systems. The method uses stochastic branching and pruning to achieve uniform sampling of trajectories in phase space and time, leading to accurate estimates for time-dependent switching propensities and time-dependent phase space probability densities. It is suitable for equilibrium or non-equilibrium systems, in or out of stationary state, including non-Markovian or externally driven systems. We demonstrate the validity of the technique by applying it to a one-dimensional barrier crossing problem that can be solved exactly, and show its usefulness by applying it to the time-dependent switching of a genetic toggle switch. (C) 2012 American Institute of Physics. [http://dx.doi.org/10.1063/1.4704810]

Original languageEnglish
Article number174118
Pages (from-to)-
Number of pages18
JournalThe Journal of Chemical Physics
Volume136
Issue number17
DOIs
Publication statusPublished - 7 May 2012

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