Issue
EPL
Volume 82, Number 2, April 2008
Article Number 28010
Number of page(s) 6
Section Interdisciplinary Physics and Related Areas of Science and Technology
DOI http://dx.doi.org/10.1209/0295-5075/82/28010
Published online 14 April 2008
EPL, 82 (2008) 28010
DOI: 10.1209/0295-5075/82/28010

Dynamics of gene expression and the regulatory inference problem

J. Berg

Institut für Theoretische Physik, Universität zu Köln - Zülpicherstr. 77, 50937 Köln, Germany, EU and Kavli Institute for Theoretical Physics, UCSB - Santa Barbara, CA 93106-4030, USA

berg@thp.uni-koeln.de

received 21 December 2007; accepted in final form 5 March 2008; published April 2008
published online 14 April 2008

Abstract
From the response to external stimuli to cell division and death, the dynamics of living cells is based on the expression of specific genes at specific times. The decision when to express a gene is implemented by the binding and unbinding of transcription factor molecules to regulatory DNA. Here, we construct stochastic models of gene expression dynamics and test them on experimental time series data of messenger-RNA concentrations. The models are used to infer biophysical parameters of gene transcription, including the statistics of transcription factor-DNA binding and the target genes controlled by a given transcription factor.

PACS
87.16.Yc - Regulatory genetic and chemical networks.
87.10.Mn - Stochastic modeling.
87.16.dj - Dynamics and fluctuations.

© EPLA 2008