TY - JOUR
T1 - Mean-field versus stochastic models for transcriptional regulation
AU - Blossey, R.
AU - Giuraniuc, C. V.
N1 - We thank Luca Cardelli, Andrew Phillips, and Yasushi Saka for discussions.
PY - 2008/9/10
Y1 - 2008/9/10
N2 - We introduce a minimal model description for the dynamics of transcriptional regulatory networks. It is studied within a mean-field approximation, i.e., by deterministic ODE's representing the reaction kinetics, and by stochastic simulations employing the Gillespie algorithm. We elucidate the different results that both approaches can deliver, depending on the network under study, and in particular depending on the level of detail retained in the respective description. Two examples are addressed in detail: The repressilator, a transcriptional clock based on a three-gene network realized experimentally in E. coli, and a bistable two-gene circuit under external driving, a transcriptional network motif recently proposed to play a role in cellular development.
AB - We introduce a minimal model description for the dynamics of transcriptional regulatory networks. It is studied within a mean-field approximation, i.e., by deterministic ODE's representing the reaction kinetics, and by stochastic simulations employing the Gillespie algorithm. We elucidate the different results that both approaches can deliver, depending on the network under study, and in particular depending on the level of detail retained in the respective description. Two examples are addressed in detail: The repressilator, a transcriptional clock based on a three-gene network realized experimentally in E. coli, and a bistable two-gene circuit under external driving, a transcriptional network motif recently proposed to play a role in cellular development.
UR - http://www.scopus.com/inward/record.url?scp=51849141809&partnerID=8YFLogxK
U2 - 10.1103/PhysRevE.78.031909
DO - 10.1103/PhysRevE.78.031909
M3 - Article
AN - SCOPUS:51849141809
SN - 1539-3755
VL - 78
JO - Physical Review E - Statistical, Nonlinear, and Soft Matter Physics
JF - Physical Review E - Statistical, Nonlinear, and Soft Matter Physics
IS - 3
M1 - 031909
ER -