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Items: 1 to 20 of 146

1.

Space as the final frontier in stochastic simulations of biological systems.

Lemerle C, Di Ventura B, Serrano L.

FEBS Lett. 2005 Mar 21;579(8):1789-94. Review.

2.

Space in systems biology of signaling pathways--towards intracellular molecular crowding in silico.

Takahashi K, Arjunan SN, Tomita M.

FEBS Lett. 2005 Mar 21;579(8):1783-8. Review.

3.

Chapter 23: Stochastic modeling methods in cell biology.

Sun SX, Lan G, Atilgan E.

Methods Cell Biol. 2008;89:601-21. doi: 10.1016/S0091-679X(08)00623-7.

PMID:
19118692
4.

Modeling and simulation of biological systems with stochasticity.

Meng TC, Somani S, Dhar P.

In Silico Biol. 2004;4(3):293-309.

PMID:
15724281
5.

Reactive boundary conditions for stochastic simulations of reaction-diffusion processes.

Erban R, Chapman SJ.

Phys Biol. 2007 Feb 14;4(1):16-28.

PMID:
17406082
6.

COAST: Controllable approximative stochastic reaction algorithm.

Wagner H, Möller M, Prank K.

J Chem Phys. 2006 Nov 7;125(17):174104.

PMID:
17100426
7.

Multiresolution stochastic simulations of reaction-diffusion processes.

Bayati B, Chatelain P, Koumoutsakos P.

Phys Chem Chem Phys. 2008 Oct 21;10(39):5963-6. doi: 10.1039/b810795e. Epub 2008 Sep 1.

8.

Simple stochastic simulation.

Schilstra MJ, Martin SR.

Methods Enzymol. 2009;467:381-409. doi: 10.1016/S0076-6879(09)67015-4.

PMID:
19897101
9.
10.

Sequential estimation for prescribed statistical accuracy in stochastic simulation of biological systems.

Sandmann W.

Math Biosci. 2009 Sep;221(1):43-53. doi: 10.1016/j.mbs.2009.06.006. Epub 2009 Jul 2.

PMID:
19576907
11.

Path ensembles and path sampling in nonequilibrium stochastic systems.

Harland B, Sun SX.

J Chem Phys. 2007 Sep 14;127(10):104103.

PMID:
17867733
12.
13.
14.

Modeling and stochastic simulation of the Ras/cAMP/PKA pathway in the yeast Saccharomyces cerevisiae evidences a key regulatory function for intracellular guanine nucleotides pools.

Cazzaniga P, Pescini D, Besozzi D, Mauri G, Colombo S, Martegani E.

J Biotechnol. 2008 Feb 1;133(3):377-85. Epub 2007 Oct 11.

PMID:
18023904
15.

SmartCell, a framework to simulate cellular processes that combines stochastic approximation with diffusion and localisation: analysis of simple networks.

Ander M, Beltrao P, Di Ventura B, Ferkinghoff-Borg J, Foglierini M, Kaplan A, Lemerle C, Tomás-Oliveira I, Serrano L.

Syst Biol (Stevenage). 2004 Jun;1(1):129-38.

PMID:
17052123
16.

Stochastic P systems and the simulation of biochemical processes with dynamic compartments.

Spicher A, Michel O, Cieslak M, Giavitto JL, Prusinkiewicz P.

Biosystems. 2008 Mar;91(3):458-72. Epub 2007 Jul 17. Review.

PMID:
17728055
17.

Bayesian inference for stochastic kinetic models using a diffusion approximation.

Golightly A, Wilkinson DJ.

Biometrics. 2005 Sep;61(3):781-8.

PMID:
16135029
18.

Modelling metapopulations with stochastic membrane systems.

Besozzi D, Cazzaniga P, Pescini D, Mauri G.

Biosystems. 2008 Mar;91(3):499-514. Epub 2007 Aug 11. Review.

PMID:
17904729
19.
20.

Morphogenesis of the tumor patterns.

Izquierdo-Kulich E, Nieto-Villar JM.

Math Biosci Eng. 2008 Apr;5(2):299-313.

PMID:
18613735

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