ANZIAM J. 46(E) ppC530--C543, 2005.
A stochastic model of gene switches
Lucia Santoso | Hilary S. Booth | Conrad J. Burden | Markus Hegland |
Abstract
We present a stochastic model of genetic regulation where the expression of genes are controlled by protein levels. In particular, we examine a genetic toggle switch with two competing proteins where one protein switches off the other gene. We model this switching behaviour in the framework of the Stochastic Master Equation (SME), which is a continuous time variant of a Markov model used in chemical systems. Thus far, the SME is mainly solved by stochastic simulation due to the perceived high computational demands. We explore approximation techniques which allow the numerical solution of the SME to be tractable.
Download to your computer
- Click here for the PDF article (224 kbytes) We suggest printing 2up.
- Click here for its BiBTeX record
Authors
- Lucia Santoso
- Hilary S. Booth
- Centre for Bioinformation Science, Mathematical Sciences Institute, Australian National University, Canberra, ACT 0200, Australia mailto:lucia.santoso@anu.edu.au
- Conrad J. Burden
- Centre for Bioinformation Science, John Curtin School of Medical Research & Mathematical Sciences Institute, Australian National University, Canberra, ACT 0200, Australia
- Markus Hegland
- Centre for Mathematics and its Application, Mathematical Sciences Institute, Australian National University, Canberra, ACT 0200, Australia
Published June 29, 2005. ISSN 1446-8735
References
- A. Arkin, J. Ross, and H. H. McAdams. Stochastic kinetic analysis of developmental pathway bifurcation in phage $\lambda $-infected {escherichia coli}. Genetics, 149:1633--1648, 1998.
- T. S. Gardner, C.R. Cantor, and J.J. Collins. Construction of a genetic toggle switch in {escherichia coli}. Nature, 403:339--342, 2000.
- D. T. Gillespie. Markov Processes: an introduction for physical scientists. Academic Press, San Diego, USA, 1992.
- B. Lewin. Genes {V}. Oxford University Press, 1994.
- W. Stewart. Introduction to the numerical solution of Markov Chains. Princeton University Press, 1994.
- T. Tian and K. Burrage. Bistability and switching in the lysis/lysogeny genetic regulatory network of bacteriophage - $\lambda $. Journal of Theoritical Biology, 227:229--237, 2004.
- N. G. {van Kampen}. Stochastic Processes in Physics and Chemistry. North Holland, Amsterdam, the Netherlands, 1981.