PubMed

Amplitude distribution of stochastic oscillations in biochemical networks due to intrinsic noise.

Lang M, Waldherr S, Allgöwer F.

PMC Biophys. 2009 Nov 17;2(1):10.PMID: 19919689 [PubMed - in process]Related articlesFree article

A systematic molecular circuit design method for gene networks under biochemical time delays and molecular noises.

Chen BS, Chang YT.

BMC Syst Biol. 2008 Nov 27;2:103.PMID: 19038029 [PubMed - indexed for MEDLINE]Related articlesFree article

A dominated coupling from the past algorithm for the stochastic simulation of networks of biochemical reactions.

Hemberg M, Barahona M.

BMC Syst Biol. 2008 May 8;2:42.PMID: 18466612 [PubMed - indexed for MEDLINE]Related articlesFree article

An optimal algorithm for enumerating state space of stochastic molecular networks with small copy numbers of molecules.

Cao Y, Liang J.

Conf Proc IEEE Eng Med Biol Soc. 2007;2007:4599-602.PMID: 18003030 [PubMed - indexed for MEDLINE]Related articles

A constant-time kinetic Monte Carlo algorithm for simulation of large biochemical reaction networks.

Slepoy A, Thompson AP, Plimpton SJ.

J Chem Phys. 2008 May 28;128(20):205101.PMID: 18513044 [PubMed - indexed for MEDLINE]Related articles

Sustained oscillations in stochastic systems.

Aparicio JP, Solari HG.

Math Biosci. 2001 Jan;169(1):15-25.PMID: 11137526 [PubMed - indexed for MEDLINE]Related articles

Stochastic oscillations in genetic regulatory networks: application to microarray experiments.

Rosenfeld S.

EURASIP J Bioinform Syst Biol. 2006:59526.PMID: 18427584 [PubMed - in process]Related articlesFree article

Optimal observability of sustained stochastic competitive inhibition oscillations at organellar volumes.

Davis KL, Roussel MR.

FEBS J. 2006 Jan;273(1):84-95.PMID: 16367750 [PubMed - indexed for MEDLINE]Related articles

A rigorous framework for multiscale simulation of stochastic cellular networks.

Chevalier MW, El-Samad H.

J Chem Phys. 2009 Aug 7;131(5):054102.PMID: 19673546 [PubMed - indexed for MEDLINE]Related articles

Stochastic simulation and analysis of biomolecular reaction networks.

Frazier JM, Chushak Y, Foy B.

BMC Syst Biol. 2009 Jun 17;3:64.PMID: 19534796 [PubMed - indexed for MEDLINE]Related articlesFree article

Stochastic phase reduction for a general class of noisy limit cycle oscillators.

Teramae JN, Nakao H, Ermentrout GB.

Phys Rev Lett. 2009 May 15;102(19):194102. Epub 2009 May 14.PMID: 19518956 [PubMed - indexed for MEDLINE]Related articles

Stochastic resonance of collective variables in finite sets of interacting identical subsystems.

Casado JM, Gómez Ordóñez J, Morillo M.

Phys Rev E Stat Nonlin Soft Matter Phys. 2006 Jan;73(1 Pt 1):011109. Epub 2006 Jan 25.PMID: 16486124 [PubMed]Related articles

Reaction factoring and bipartite update graphs accelerate the Gillespie Algorithm for large-scale biochemical systems.

Indurkhya S, Beal J.

PLoS One. 2010 Jan 6;5(1):e8125.PMID: 20066048 [PubMed - in process]Related articlesFree article

Intrinsic fluctuations in stochastic delay systems: theoretical description and application to a simple model of gene regulation.

Galla T.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Aug;80(2 Pt 1):021909. Epub 2009 Aug 12.PMID: 19792153 [PubMed - indexed for MEDLINE]Related articles

Deterministic analysis of stochastic bifurcations in multi-stable neurodynamical systems.

Deco G, Martí D.

Biol Cybern. 2007 May;96(5):487-96. Epub 2007 Mar 27.PMID: 17387505 [PubMed - indexed for MEDLINE]Related articles

Distributions for negative-feedback-regulated stochastic gene expression: Dimension reduction and numerical solution of the chemical master equation.

Zeron ES, Santillán M.

J Theor Biol. 2010 Feb 6. [Epub ahead of print]PMID: 20144620 [PubMed - as supplied by publisher]Related articles

Stochastic bimodalities in deterministically monostable reversible chemical networks due to network topology reduction.

Artyomov MN, Mathur M, Samoilov MS, Chakraborty AK.

J Chem Phys. 2009 Nov 21;131(19):195103.PMID: 19929080 [PubMed - indexed for MEDLINE]Related articles

Binomial tau-leap spatial stochastic simulation algorithm for applications in chemical kinetics.

Marquez-Lago TT, Burrage K.

J Chem Phys. 2007 Sep 14;127(10):104101.PMID: 17867731 [PubMed]Related articles

An adaptive time step scheme for a system of stochastic differential equations with multiple multiplicative noise: chemical Langevin equation, a proof of concept.

Sotiropoulos V, Kaznessis YN.

J Chem Phys. 2008 Jan 7;128(1):014103.PMID: 18190181 [PubMed]Related articles

Enhancement of stochastic oscillations by colored noise or internal noise in NO reduction by CO on small platinum surfaces.

Gong Y, Xie Y, Xu B, Ma X.

J Chem Phys. 2008 Mar 28;128(12):124707.PMID: 18376960 [PubMed - indexed for MEDLINE]Related articles