Eva Balsa-Canto

Summary

Country: Spain

Publications

  1. pmc Hybrid optimization method with general switching strategy for parameter estimation
    Eva Balsa-Canto
    Process Engineering Group, Spanish Council for Scientific Research, IIM CSIC, Spain
    BMC Syst Biol 2:26. 2008
  2. pmc Global dynamic optimization approach to predict activation in metabolic pathways
    Gundián M de Hijas-Liste
    Bioprocess Engineering Group, Spanish National Research Council, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    BMC Syst Biol 8:1. 2014
  3. doi Computational procedures for optimal experimental design in biological systems
    E Balsa-Canto
    Process Engineering Group, IIM CSIC, Vigo, Spain
    IET Syst Biol 2:163-72. 2008
  4. doi Global optimization in systems biology: stochastic methods and their applications
    Eva Balsa-Canto
    Bio Process Engineering Group, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    Adv Exp Med Biol 736:409-24. 2012
  5. pmc An iterative identification procedure for dynamic modeling of biochemical networks
    Eva Balsa-Canto
    Bioprocess Engineering Group, Spanish National Research Council, IIM CSIC, 36208 Vigo Spain
    BMC Syst Biol 4:11. 2010
  6. pmc AMIGO, a toolbox for advanced model identification in systems biology using global optimization
    Eva Balsa-Canto
    Bioprocess Engineering Group, IIM CSIC, 36208 Vigo, Spain
    Bioinformatics 27:2311-3. 2011
  7. pmc BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, Vigo, 36208, Spain
    BMC Syst Biol 9:8. 2015
  8. ncbi Dynamic optimization of bioprocesses: efficient and robust numerical strategies
    Julio R Banga
    Process Engineering Group, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    J Biotechnol 117:407-19. 2005
  9. doi Metabolic engineering with multi-objective optimization of kinetic models
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, 36208 Vigo, Spain Centre of Biological Engineering, Universidade do Minho, Campus de Gualtar, 4710 057 Braga, Portugal Department of Systems and Control Engineering, Universidade de Vigo, Rua Maxwell, 36310 Vigo, Spain
    J Biotechnol 222:1-8. 2016
  10. doi BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, Vigo, 36208, Spain
    BMC Syst Biol 9:144. 2015

Detail Information

Publications20

  1. pmc Hybrid optimization method with general switching strategy for parameter estimation
    Eva Balsa-Canto
    Process Engineering Group, Spanish Council for Scientific Research, IIM CSIC, Spain
    BMC Syst Biol 2:26. 2008
    ..Mathematically, this is formulated as a non-linear optimization problem which often results to be multi-modal (non-convex), rendering local optimization methods detrimental...
  2. pmc Global dynamic optimization approach to predict activation in metabolic pathways
    Gundián M de Hijas-Liste
    Bioprocess Engineering Group, Spanish National Research Council, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    BMC Syst Biol 8:1. 2014
    ..Further, these previous studies have only considered a single-objective framework...
  3. doi Computational procedures for optimal experimental design in biological systems
    E Balsa-Canto
    Process Engineering Group, IIM CSIC, Vigo, Spain
    IET Syst Biol 2:163-72. 2008
    ..The applicability and advantages of the proposed techniques are illustrated by considering an example related to a cell-signalling pathway...
  4. doi Global optimization in systems biology: stochastic methods and their applications
    Eva Balsa-Canto
    Bio Process Engineering Group, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    Adv Exp Med Biol 736:409-24. 2012
    ....
  5. pmc An iterative identification procedure for dynamic modeling of biochemical networks
    Eva Balsa-Canto
    Bioprocess Engineering Group, Spanish National Research Council, IIM CSIC, 36208 Vigo Spain
    BMC Syst Biol 4:11. 2010
    ..These parameters can be identified by fitting the model to experimental data. However, this fit can only be accomplished when identifiability can be guaranteed...
  6. pmc AMIGO, a toolbox for advanced model identification in systems biology using global optimization
    Eva Balsa-Canto
    Bioprocess Engineering Group, IIM CSIC, 36208 Vigo, Spain
    Bioinformatics 27:2311-3. 2011
    ..The design of optimal (more informative) experiments is an associated problem of the highest interest...
  7. pmc BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, Vigo, 36208, Spain
    BMC Syst Biol 9:8. 2015
    ..However, there is a lack of suitable benchmark problems which allow a fair and systematic evaluation and comparison of these contributions...
  8. ncbi Dynamic optimization of bioprocesses: efficient and robust numerical strategies
    Julio R Banga
    Process Engineering Group, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    J Biotechnol 117:407-19. 2005
    ..The results indicate that the two-phase hybrid approach presents the best compromise between robustness and efficiency...
  9. doi Metabolic engineering with multi-objective optimization of kinetic models
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, 36208 Vigo, Spain Centre of Biological Engineering, Universidade do Minho, Campus de Gualtar, 4710 057 Braga, Portugal Department of Systems and Control Engineering, Universidade de Vigo, Rua Maxwell, 36310 Vigo, Spain
    J Biotechnol 222:1-8. 2016
    ..Furthermore, it can accommodate additional trade-offs and constraints with great flexibility. ..
  10. doi BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, Vigo, 36208, Spain
    BMC Syst Biol 9:144. 2015
    ..However, there is a lack of suitable benchmark problems which allow a fair and systematic evaluation and comparison of these contributions...
  11. pmc GenSSI: a software toolbox for structural identifiability analysis of biological models
    Oana Chis
    Bio Process Engineering Group, Spanish National Research Council, IIM CSIC, 36208 Vigo, Spain
    Bioinformatics 27:2610-1. 2011
    ..The toolbox runs under the popular MATLAB environment and is accompanied by detailed documentation and relevant examples...
  12. pmc Structural identifiability of systems biology models: a critical comparison of methods
    Oana Teodora Chis
    Bioprocess Engineering Group, IIM CSIC, Vigo, Spain
    PLoS ONE 6:e27755. 2011
    ..The results reveal that the generating series approach, in combination with identifiability tableaus, offers the most advantageous compromise among range of applicability, computational complexity and information provided...
  13. pmc Dynamic optimization of distributed biological systems using robust and efficient numerical techniques
    Carlos Vilas
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, 36208 Vigo, Spain
    BMC Syst Biol 6:79. 2012
    ....
  14. doi Quality and shelf-life prediction for retail fresh hake (Merluccius merluccius)
    Míriam R García
    Bioprocess Engineering Group, IIM CSIC, C Eduardo Cabello 6, 36208 Vigo, Spain
    Int J Food Microbiol 208:65-74. 2015
    ..In addition, whenever there is the possibility to carry out the necessary experiments, this approach is sufficiently general to be used in other fish species and under different stress variables. ..
  15. pmc Optimal programs of pathway control: dissecting the influence of pathway topology and feedback inhibition on pathway regulation
    Gundián M de Hijas-Liste
    Bioprocess Engineering Group, Spanish National Research Council, IIM CSIC, C Eduardo Cabello 6, Vigo, 36208, Spain
    BMC Bioinformatics 16:163. 2015
    ..Moreover, we analyze how constraints in the speed at which an organism can respond on a proteomic level influences these optimal targets of pathway control...
  16. doi A consensus approach for estimating the predictive accuracy of dynamic models in biology
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Eduardo Cabello 6, 36208 Vigo, Spain Electronic address
    Comput Methods Programs Biomed 119:17-28. 2015
    ..The procedure provides quantitative estimates of the confidence in model predictions and enables the analysis of sufficiently complex networks as required for practical applications. ..
  17. doi Parameter estimation and optimal experimental design
    Julio R Banga
    IIM CSIC, Spanish Council for Scientific Research, C Eduardo Cabello 6, 36208 Vigo, Spain
    Essays Biochem 45:195-209. 2008
    ..We place emphasis on the need for robust global optimization methods for proper solution of these problems, and we present a motivating example considering a cell signalling model...
  18. pmc DOTcvpSB, a software toolbox for dynamic optimization in systems biology
    Tomás Hirmajer
    Instituto de Investigaciones Marinas, IIM CSIC, Spanish Council for Scientific Research, C Eduardo Cabello 6, 36208 Vigo, Spain
    BMC Bioinformatics 10:199. 2009
    ..Dynamic optimization can solve many important problems in systems biology, including optimal control for obtaining a desired biological performance, the analysis of network designs and computer aided design of biological units...
  19. doi Use of a generalized fisher equation for global optimization in chemical kinetics
    Alejandro F Villaverde
    Bioprocess Engineering Group, IIM CSIC, Vigo, Spain
    J Phys Chem A 115:8426-36. 2011
    ..Finally, a new hybrid method that combines advantages from the GFE and traditional approaches is presented...
  20. ncbi Power-law models of signal transduction pathways
    Julio Vera
    Systems Biology and Bioinformatics Group, Department of Computer Sciences, University of Rostock, 18051 Rostock, Germany
    Cell Signal 19:1531-41. 2007
    ..In particular, the investigation on the effects of signal inhibition and feedback loops and the validation of structural hypotheses are discussed...