Quasi-Monte Carlo methods applied to tau-leaping in stochastic biological systems

Author: 

Beentjes, C
Baker, R

Publication Date: 

23 May 2018

Journal: 

Bulletin of Mathematical Biology

Last Updated: 

2021-04-28T16:55:34.987+01:00

Issue: 

8

Volume: 

81

DOI: 

10.1007/s11538-018-0442-2

page: 

2931-2959

abstract: 

Quasi-Monte Carlo methods have proven to be effective extensions of traditional Monte Carlo methods in, amongst others, problems of quadrature and the sample path simulation of stochastic differential equations. By replacing the random number input stream in a simulation procedure by a low-discrepancy number input stream, variance reductions of several orders have been observed in financial applications. Analysis of stochastic effects in well-mixed chemical reaction networks often relies on sample path simulation using Monte Carlo methods, even though these methods suffer from typical slow O(N−1/2) convergence rates as a function of the number of sample paths N. This paper investigates the combination of (randomised) quasi-Monte Carlo methods with an efficient sample path simulation procedure, namely τ -leaping. We show that this combination is often more effective than traditional Monte Carlo simulation in terms of the decay of statistical errors. The observed convergence rate behaviour is, however, non-trivial due to the discrete nature of the models of chemical reactions. We explain how this affects the performance of quasi-Monte Carlo methods by looking at a test problem in standard quadrature.

Symplectic id: 

853626

Submitted to ORA: 

Submitted

Publication Type: 

Journal Article