133 related articles for article (PubMed ID: 12584138)
1. Modeling biological systems using Dynetica--a simulator of dynamic networks.
You L; Hoonlor A; Yin J
Bioinformatics; 2003 Feb; 19(3):435-6. PubMed ID: 12584138
[TBL] [Abstract][Full Text] [Related]
2. MONALISA for stochastic simulations of Petri net models of biochemical systems.
Balazki P; Lindauer K; Einloft J; Ackermann J; Koch I
BMC Bioinformatics; 2015 Jul; 16():215. PubMed ID: 26156221
[TBL] [Abstract][Full Text] [Related]
3. Biochemical Network Stochastic Simulator (BioNetS): software for stochastic modeling of biochemical networks.
Adalsteinsson D; McMillen D; Elston TC
BMC Bioinformatics; 2004 Mar; 5():24. PubMed ID: 15113411
[TBL] [Abstract][Full Text] [Related]
4. Hybrid deterministic/stochastic simulation of complex biochemical systems.
Lecca P; Bagagiolo F; Scarpa M
Mol Biosyst; 2017 Nov; 13(12):2672-2686. PubMed ID: 29058744
[TBL] [Abstract][Full Text] [Related]
5. Stochastic simulation GUI for biochemical networks.
Vallabhajosyula RR; Sauro HM
Bioinformatics; 2007 Jul; 23(14):1859-61. PubMed ID: 17586553
[TBL] [Abstract][Full Text] [Related]
6. STOCKS: STOChastic Kinetic Simulations of biochemical systems with Gillespie algorithm.
Kierzek AM
Bioinformatics; 2002 Mar; 18(3):470-81. PubMed ID: 11934747
[TBL] [Abstract][Full Text] [Related]
7. Stochastic reaction-diffusion simulation with MesoRD.
Hattne J; Fange D; Elf J
Bioinformatics; 2005 Jun; 21(12):2923-4. PubMed ID: 15817692
[TBL] [Abstract][Full Text] [Related]
8. STOCHSIMGPU: parallel stochastic simulation for the Systems Biology Toolbox 2 for MATLAB.
Klingbeil G; Erban R; Giles M; Maini PK
Bioinformatics; 2011 Apr; 27(8):1170-1. PubMed ID: 21357575
[TBL] [Abstract][Full Text] [Related]
9. Cellware--a multi-algorithmic software for computational systems biology.
Dhar P; Meng TC; Somani S; Ye L; Sairam A; Chitre M; Hao Z; Sakharkar K
Bioinformatics; 2004 May; 20(8):1319-21. PubMed ID: 14871872
[TBL] [Abstract][Full Text] [Related]
10. Adaptive stochastic-deterministic chemical kinetic simulations.
Vasudeva K; Bhalla US
Bioinformatics; 2004 Jan; 20(1):78-84. PubMed ID: 14693812
[TBL] [Abstract][Full Text] [Related]
11. COPASI--a COmplex PAthway SImulator.
Hoops S; Sahle S; Gauges R; Lee C; Pahle J; Simus N; Singhal M; Xu L; Mendes P; Kummer U
Bioinformatics; 2006 Dec; 22(24):3067-74. PubMed ID: 17032683
[TBL] [Abstract][Full Text] [Related]
12. Rapid simulation and analysis of isotopomer distributions using constraints based on enzyme mechanisms: an example from HT29 cancer cells.
Selivanov VA; Meshalkina LE; Solovjeva ON; Kuchel PW; Ramos-Montoya A; Kochetov GA; Lee PW; Cascante M
Bioinformatics; 2005 Sep; 21(17):3558-64. PubMed ID: 16002431
[TBL] [Abstract][Full Text] [Related]
13. Size-independent differences between the mean of discrete stochastic systems and the corresponding continuous deterministic systems.
Gadgil CJ
Bull Math Biol; 2009 Oct; 71(7):1599-611. PubMed ID: 19322613
[TBL] [Abstract][Full Text] [Related]
14. pSSAlib: The partial-propensity stochastic chemical network simulator.
Ostrenko O; Incardona P; Ramaswamy R; Brusch L; Sbalzarini IF
PLoS Comput Biol; 2017 Dec; 13(12):e1005865. PubMed ID: 29206229
[TBL] [Abstract][Full Text] [Related]
15. CERENA: ChEmical REaction Network Analyzer--A Toolbox for the Simulation and Analysis of Stochastic Chemical Kinetics.
Kazeroonian A; Fröhlich F; Raue A; Theis FJ; Hasenauer J
PLoS One; 2016; 11(1):e0146732. PubMed ID: 26807911
[TBL] [Abstract][Full Text] [Related]
16. Snoopy's hybrid simulator: a tool to construct and simulate hybrid biological models.
Herajy M; Liu F; Rohr C; Heiner M
BMC Syst Biol; 2017 Jul; 11(1):71. PubMed ID: 28754122
[TBL] [Abstract][Full Text] [Related]
17. Dizzy: stochastic simulation of large-scale genetic regulatory networks.
Ramsey S; Orrell D; Bolouri H
J Bioinform Comput Biol; 2005 Apr; 3(2):415-36. PubMed ID: 15852513
[TBL] [Abstract][Full Text] [Related]
18. Dizzy: stochastic simulation of large-scale genetic regulatory networks (supplementary material).
Ramsey S; Orrell D; Bolouri H
J Bioinform Comput Biol; 2005 Apr; 3(2):437-54. PubMed ID: 15852514
[No Abstract] [Full Text] [Related]
19. STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies.
Hepburn I; Chen W; Wils S; De Schutter E
BMC Syst Biol; 2012 May; 6():36. PubMed ID: 22574658
[TBL] [Abstract][Full Text] [Related]
20. Rule-based modeling with Virtual Cell.
Schaff JC; Vasilescu D; Moraru II; Loew LM; Blinov ML
Bioinformatics; 2016 Sep; 32(18):2880-2. PubMed ID: 27497444
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]