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Items: 1 to 20 of 27

1.

On the relationship between sloppiness and identifiability.

Chis OT, Villaverde AF, Banga JR, Balsa-Canto E.

Math Biosci. 2016 Dec;282:147-161. doi: 10.1016/j.mbs.2016.10.009.

PMID:
27789352
2.

AMIGO2, a toolbox for dynamic modeling, optimization and control in systems biology.

Balsa-Canto E, Henriques D, Gábor A, Banga JR.

Bioinformatics. 2016 Nov 1;32(21):3357-3359.

3.

Quantitative image analysis to characterize the dynamics of Listeria monocytogenes biofilms.

Mosquera-Fernández M, Sanchez-Vizuete P, Briandet R, Cabo ML, Balsa-Canto E.

Int J Food Microbiol. 2016 Nov 7;236:130-7. doi: 10.1016/j.ijfoodmicro.2016.07.015.

PMID:
27494720
4.

Towards predictive food process models: A protocol for parameter estimation.

Vilas C, Arias-Méndez A, Garcia MR, Alonso AA, Balsa-Canto E.

Crit Rev Food Sci Nutr. 2016 May 31:0. [Epub ahead of print]

PMID:
27246577
5.

Metabolic engineering with multi-objective optimization of kinetic models.

Villaverde AF, Bongard S, Mauch K, Balsa-Canto E, Banga JR.

J Biotechnol. 2016 Mar 20;222:1-8. doi: 10.1016/j.jbiotec.2016.01.005.

PMID:
26826510
6.

Quality and shelf-life prediction for retail fresh hake (Merluccius merluccius).

García MR, Vilas C, Herrera JR, Bernárdez M, Balsa-Canto E, Alonso AA.

Int J Food Microbiol. 2015 Sep 2;208:65-74. doi: 10.1016/j.ijfoodmicro.2015.05.012.

7.

Optimal programs of pathway control: dissecting the influence of pathway topology and feedback inhibition on pathway regulation.

de Hijas-Liste GM, Balsa-Canto E, Ewald J, Bartl M, Li P, Banga JR, Kaleta C.

BMC Bioinformatics. 2015 May 16;16:163. doi: 10.1186/s12859-015-0587-z.

8.

BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology.

Villaverde AF, Henriques D, Smallbone K, Bongard S, Schmid J, Cicin-Sain D, Crombach A, Saez-Rodriguez J, Mauch K, Balsa-Canto E, Mendes P, Jaeger J, Banga JR.

BMC Syst Biol. 2015 Feb 20;9:8. doi: 10.1186/s12918-015-0144-4.

9.

A consensus approach for estimating the predictive accuracy of dynamic models in biology.

Villaverde AF, Bongard S, Mauch K, Müller D, Balsa-Canto E, Schmid J, Banga JR.

Comput Methods Programs Biomed. 2015 Apr;119(1):17-28. doi: 10.1016/j.cmpb.2015.02.001.

PMID:
25716416
10.

Numerical spatio-temporal characterization of Listeria monocytogenes biofilms.

Mosquera-Fernández M, Rodríguez-López P, Cabo ML, Balsa-Canto E.

Int J Food Microbiol. 2014 Jul 16;182-183:26-36. doi: 10.1016/j.ijfoodmicro.2014.05.005.

PMID:
24858448
11.

Global dynamic optimization approach to predict activation in metabolic pathways.

de Hijas-Liste GM, Klipp E, Balsa-Canto E, Banga JR.

BMC Syst Biol. 2014 Jan 6;8:1. doi: 10.1186/1752-0509-8-1.

12.

Reverse-engineering post-transcriptional regulation of gap genes in Drosophila melanogaster.

Becker K, Balsa-Canto E, Cicin-Sain D, Hoermann A, Janssens H, Banga JR, Jaeger J.

PLoS Comput Biol. 2013 Oct;9(10):e1003281. doi: 10.1371/journal.pcbi.1003281.

13.

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 2;6:79. doi: 10.1186/1752-0509-6-79.

14.

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. doi: 10.1007/978-1-4419-7210-1_24.

PMID:
22161343
15.

Structural identifiability of systems biology models: a critical comparison of methods.

Chis OT, Banga JR, Balsa-Canto E.

PLoS One. 2011;6(11):e27755. doi: 10.1371/journal.pone.0027755.

16.

GenSSI: a software toolbox for structural identifiability analysis of biological models.

Chiş O, Banga JR, Balsa-Canto E.

Bioinformatics. 2011 Sep 15;27(18):2610-1. doi: 10.1093/bioinformatics/btr431.

17.

Use of a generalized fisher equation for global optimization in chemical kinetics.

Villaverde AF, Ross J, Morán F, Balsa-Canto E, Banga JR.

J Phys Chem A. 2011 Aug 4;115(30):8426-36. doi: 10.1021/jp203158r.

PMID:
21711023
18.

AMIGO, a toolbox for advanced model identification in systems biology using global optimization.

Balsa-Canto E, Banga JR.

Bioinformatics. 2011 Aug 15;27(16):2311-3. doi: 10.1093/bioinformatics/btr370.

19.

Investigating dynamics of inhibitory and feedback loops in ERK signalling using power-law models.

Vera J, Rath O, Balsa-Canto E, Banga JR, Kolch W, Wolkenhauer O.

Mol Biosyst. 2010 Nov;6(11):2174-91. doi: 10.1039/c0mb00018c.

PMID:
20717620
20.

Generic parameterization for a pharmacokinetic model to predict Cd concentrations in several tissues of different fish species.

Franco-Uría A, Otero-Muras I, Balsa-Canto E, Alonso AA, Roca E.

Chemosphere. 2010 Apr;79(4):377-86. doi: 10.1016/j.chemosphere.2010.02.010.

PMID:
20202672
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