509 related articles for article (PubMed ID: 22161343)
1. Global optimization in systems biology: stochastic methods and their applications.
Balsa-Canto E; Banga JR; Egea JA; Fernandez-Villaverde A; de Hijas-Liste GM
Adv Exp Med Biol; 2012; 736():409-24. PubMed ID: 22161343
[TBL] [Abstract][Full Text] [Related]
2. A parallel metaheuristic for large mixed-integer dynamic optimization problems, with applications in computational biology.
Penas DR; Henriques D; González P; Doallo R; Saez-Rodriguez J; Banga JR
PLoS One; 2017; 12(8):e0182186. PubMed ID: 28813442
[TBL] [Abstract][Full Text] [Related]
3. Novel metaheuristic for parameter estimation in nonlinear dynamic biological systems.
Rodriguez-Fernandez M; Egea JA; Banga JR
BMC Bioinformatics; 2006 Nov; 7():483. PubMed ID: 17081289
[TBL] [Abstract][Full Text] [Related]
4. DOTcvpSB, a software toolbox for dynamic optimization in systems biology.
Hirmajer T; Balsa-Canto E; Banga JR
BMC Bioinformatics; 2009 Jun; 10():199. PubMed ID: 19558728
[TBL] [Abstract][Full Text] [Related]
5. MEIGO: an open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics.
Egea JA; Henriques D; Cokelaer T; Villaverde AF; MacNamara A; Danciu DP; Banga JR; Saez-Rodriguez J
BMC Bioinformatics; 2014 May; 15():136. PubMed ID: 24885957
[TBL] [Abstract][Full Text] [Related]
6. 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]
7. Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy.
Penas DR; González P; Egea JA; Doallo R; Banga JR
BMC Bioinformatics; 2017 Jan; 18(1):52. PubMed ID: 28109249
[TBL] [Abstract][Full Text] [Related]
8. Computational modeling of biochemical networks using COPASI.
Mendes P; Hoops S; Sahle S; Gauges R; Dada J; Kummer U
Methods Mol Biol; 2009; 500():17-59. PubMed ID: 19399433
[TBL] [Abstract][Full Text] [Related]
9. AMIGO2, a toolbox for dynamic modeling, optimization and control in systems biology.
Balsa-Canto E; Henriques D; Gábor A; Banga JR
Bioinformatics; 2016 Nov; 32(21):3357-3359. PubMed ID: 27378288
[TBL] [Abstract][Full Text] [Related]
10. ConvAn: a convergence analyzing tool for optimization of biochemical networks.
Kostromins A; Mozga I; Stalidzans E
Biosystems; 2012; 108(1-3):73-7. PubMed ID: 22212352
[TBL] [Abstract][Full Text] [Related]
11. Parameter estimation in biochemical pathways: a comparison of global optimization methods.
Moles CG; Mendes P; Banga JR
Genome Res; 2003 Nov; 13(11):2467-74. PubMed ID: 14559783
[TBL] [Abstract][Full Text] [Related]
12. Computational procedures for optimal experimental design in biological systems.
Balsa-Canto E; Alonso AA; Banga JR
IET Syst Biol; 2008 Jul; 2(4):163-72. PubMed ID: 18681746
[TBL] [Abstract][Full Text] [Related]
13. Extraction of elementary rate constants from global network analysis of E. coli central metabolism.
Zhao J; Ridgway D; Broderick G; Kovalenko A; Ellison M
BMC Syst Biol; 2008 May; 2():41. PubMed ID: 18462493
[TBL] [Abstract][Full Text] [Related]
14. Taming the complexity of biological pathways through parallel computing.
Ballarini P; Guido R; Mazza T; Prandi D
Brief Bioinform; 2009 May; 10(3):278-88. PubMed ID: 19339382
[TBL] [Abstract][Full Text] [Related]
15. Dynamic optimization of distributed biological systems using robust and efficient numerical techniques.
Vilas C; Balsa-Canto E; García MS; Banga JR; Alonso AA
BMC Syst Biol; 2012 Jul; 6():79. PubMed ID: 22748139
[TBL] [Abstract][Full Text] [Related]
16. Computational systems biology in drug discovery and development: methods and applications.
Materi W; Wishart DS
Drug Discov Today; 2007 Apr; 12(7-8):295-303. PubMed ID: 17395089
[TBL] [Abstract][Full Text] [Related]
17. 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]
18. Towards a Grid infrastructure to support integrative approaches to biological research.
Gavaghan DJ; Simpson AC; Lloyd S; Mac Randal DF; Boyd DR
Philos Trans A Math Phys Eng Sci; 2005 Aug; 363(1833):1829-41. PubMed ID: 16099751
[TBL] [Abstract][Full Text] [Related]
19. Differential simulated annealing: a robust and efficient global optimization algorithm for parameter estimation of biological networks.
Dai Z; Lai L
Mol Biosyst; 2014 Jun; 10(6):1385-92. PubMed ID: 24714701
[TBL] [Abstract][Full Text] [Related]
20. Modeling and Simulation Tools: From Systems Biology to Systems Medicine.
Olivier BG; Swat MJ; Moné MJ
Methods Mol Biol; 2016; 1386():441-63. PubMed ID: 26677194
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
