Oscillatory regulation of hes1: Discrete stochastic delay modelling and simulation

被引：194

作者：

Barrio, Manuel

Burrage, Kevin ^{[1
]}

Leier, Andre

Tian, Tianhai

机构：

[1] Univ Queensland, Adv Computat Modeling Ctr, Brisbane, Qld, Australia

[2] Univ Valladolid, Dept Informat, E-47002 Valladolid, Spain

来源：

PLOS COMPUTATIONAL BIOLOGY | 2006年 / 2卷 / 09期

关键词：

D O I：

10.1371/journal.pcbi.0020117

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Discrete stochastic simulations are a powerful tool for understanding the dynamics of chemical kinetics when there are small-to-moderate numbers of certain molecular species. In this paper we introduce delays into the stochastic simulation algorithm, thus mimicking delays associated with transcription and translation. We then show that this process may well explain more faithfully than continuous deterministic models the observed sustained oscillations in expression levels of hes1 mRNA and Hes1 protein.

引用

收藏

页码：1017 / 1030

页数：14

相关论文

共 22 条

[1] DELAYS IN PHYSIOLOGICAL SYSTEMS [J].

ANDERHEIDEN, U .

JOURNAL OF MATHEMATICAL BIOLOGY, 1979, 8 (04) :345-364

[2]

Arkin A, 1998, GENETICS, V149, P1633

[3] A serum shock induces circadian gene expression in mammalian tissue culture cells [J].

Balsalobre, A ;

Damiola, F ;

Schibler, U .

CELL, 1998, 93 (06) :929-937

[4] Modelling transcriptional feedback loops: the role of Gro/TLE1 in Hes1 oscillations [J].

Bernard, S ;

Cajavec, B ;

Pujo-Menjouet, L ;

Mackey, MC ;

Herzel, H .

PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES, 2006, 364 (1842) :1155-1170

[5] Transcriptional regulatory cascades in development: Initial rates, not steady state, determine network kinetics [J].

Bolouri, H ;

Davidson, EH .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2003, 100 (16) :9371-9376

[6] A multi-scaled approach for simulating chemical reaction systems [J].

Burrage, K ;

Tian, TH ;

Burrage, P .

PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY, 2004, 85 (2-3) :217-234

[7] A synthetic oscillatory network of transcriptional regulators [J].

Elowitz, MB ;

Leibler, S .

NATURE, 2000, 403 (6767) :335-338

[8]

Gillespie D.T., 1991, Markov processes: an introduction for physical scientists

[9] Approximate accelerated stochastic simulation of chemically reacting systems [J].

Gillespie, DT .

JOURNAL OF CHEMICAL PHYSICS, 2001, 115 (04) :1716-1733

[10] EXACT STOCHASTIC SIMULATION OF COUPLED CHEMICAL-REACTIONS [J].

GILLESPIE, DT .

JOURNAL OF PHYSICAL CHEMISTRY, 1977, 81 (25) :2340-2361