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The MATLAB based toolbox AMIGO: Advanced Model Identification using Global Optimization, is now available at ...

 

 

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(Bio)Process Engineering Group

national Spanish Research Council

Publications

In this page you may find a complete list of published papers and book chapters. If you want reprints, please let me know.

2013

55. Becker, K., E. Balsa-Canto, D. Cicin-Sain, A. Hoermann, H. Janssens, J.R. Banga, J. Jaeger (2013) Reverse-Engineering Post-Transcriptional Regulation of Gap Genes in Drosophila melanogaster. PLoS Computational Biology. In press.
54. Balsa-Canto E. and Banga J.R. (2013) Optimal Dynamic Experiments.W. Dubitzky, O. Wolkenhauer, K. Cho & H. Yokota (eds.), Encyclopedia of Systems Biology, Springer Science+Business Media, LLC 2013
53. Arias-Méndez A., Warning A., Datta A.K., Balsa-Canto E. (2013) Quality and safety driven optimal operation of deep-fat frying of potato chips. J. Food Eng. 119(1):125-134.
52. Alonso A.A., Arias-Méndez A., Balsa-Canto E., García M.R., Molina J.I., Vilas C. and Villafín M. (2013) Real Time Optimization for Quality Control of Batch Thermal Sterilization of Prepackaged Foods. Food Control, doi: 10.1016/j.foodcont.2013.01.002.

2012

51. Vilas C., Balsa-Canto E., S.G. Garcia, J.R. Banga and A.A. Alonso (2012) Dynamic optimization of distributed biological systems using robust and efficient numerical techniques. BMC Systems Biology, 6:79.
50. Vilas C., Balsa-Canto E., J.R. Banga and A.A. Alonso (2012) Robust and efficient numerical methods for the optimal control of spatially distributed biological systems.20th Mediterranean Conference on Control and Automation, MED 2012 - Conference Proceedings , art. no. 6265632 , pp. 163-168.
49. Balsa-Canto, E., J.R. Banga, J.A. Egea, A. Fernandez-Villaverde and G.M. de Hijas-Liste (2012) Global optimization in systems biology: stochastic methods and their applications. Adv. Exp. Med. Biol. 736 (Advances in Systems Biology):409-424.
48. E. van Derlinden, E. Balsa-Canto, J.F.M. van Impe.(2012) Optimal experimenal design for microbial inactivation. Progress on quantitative approaches of thermal food processing. Ed. V. P. Valdramidis, J.F.M. Van Impe (Eds.) nova Sicence Pub. ISBn: 978-1-62100-899-6

2011

47. De Hijas-Liste G.M.; Balsa-Canto E.; Banga J.R. (2011) Prediction of activation of metabolic pathways via dynamic optimization. Computer-Aided Chemical Engineering. Eds. Pistikopoulos En; Georgiadis MC; Kokossis AC, Vol: 29 Pages: 1386-1390.
46. Chis O., Banga J.R., Balsa-Canto E. (2011) Structural Identifiability of Systems Biology Models: A Critical Comparison of Methods. Plos OnE 6(11): e27755.
45. Chis O., Banga J.R., Balsa-Canto E. (2011) GenSSI: a software toolbox for structural identifiability analysis of biological models. Bioinformatics 27(18), 2610-2611.
44. Balsa-Canto E., Banga J.R. (2011) AMIGO, a toolbox for advanced model identification in systems biology using global optimization. Bioinformatics 27(16), 2311-2313.
43. Villaverde A.F., Ross J., Moran F., Balsa-Canto E., Banga J.R. (2011) Use of a Generalized Fisher Equation for Global Optimization in Chemical Kinetics. J. Phys. Chem. 115(30), 8426-8436.
42. Garcia M.R., C. Vilas, E. Balsa-Canto, V. Lyubenovac, M.n. Ignatovac, A.A. Alonso (2011) On-line estimation in a distributed parameter bioreactor: Application to the gluconic acid production. Comp. & Chem. Eng. 35(1), 84-91.

2010

41. Vera J., O. Rath, E. Balsa-Canto, J.R. Banga, W. Kolch, O. Wolkenhauer (2010) Investigating dynamics of inhibitory and feed back loops in ERK signalling using power-law models. Molecular Biosystems. 6: 2174-2191.
40. Balsa-Canto E. and J.R. Banga (2010) Computational Procedures for Model Identification. In: Systems Biology for Signaling networks. Choi, S. (Ed.) (pp: 111-138), Springer.
39. Balsa-Canto E., J.R. Banga and M.R. García (2010) Dynamic Model Building Using Optimal Identification Strategies, with Applications in Bioprocess Engineering. Process Systems Eng. (Vol. 7, Banga J.R., Georgiadis M., Pistikopoulos E. (eds.)), Wiley-VCH, Weinheim.
38. Franco-Uría A, I. Otero-Muras, E. Balsa-Canto, A.A. Alonso, E. Roca (2010) Generic parameterization for a pharmacokinetic model to predict Cd concentrations in several tissues of different fish species. Chemosphere. 79:377-386.
37. Balsa-Canto, E., A.A. Alonso and J.R. Banga (2010) An iterative identification procedure for dynamic modeling of biochemical networks. BMC Systems Biology. 4:11.
36. Otero-Muras I, Franco-Uría A., Alonso A.A., Balsa-Canto E (2010) Dynamic multi compartmental modelling of metal bioaccumulation in fish: Identifiability implications. Env. Mod. & Soft. 25(3): 344-353.

2009

35. J.R. Banga, E. Balsa-Canto, A.A. Alonso (2009) Global optimization in thermal processing. In: Engineering aspects of Thermal Food Processing. R. Simpson Ed. CRC Press, Pages: 365-376.
34. Hirmajer T., E. Balsa-Canto, J.R.Banga (2009) DOTcvpSB, A software toolbox for dynamic optimization in systems biology. BMC Bioinformatics, 10:199-
33. Egea, J.A., E. Balsa-Canto, M.S.G. Garcia, J.R.Banga (2009) Dynamic Optimization of nonlinear Processes with an Enhanced Scatter Search. Ind. & Eng. Chem. Res. 48:4388-4401.

2008

32. Banga, J.R. and E. Balsa-Canto (2008) Parameter estimation and optimal experimental design. Essays in Biochemistry, 45:195-210.
31. Balsa-Canto, E., M. Peifer, J.R. Banga, J. Timmer, C. Fleck (2008) Hybrid optimization method with general switching strategy for parameter estimation. BMC Systems Biology, 2:26.
30. Balsa-Canto, E., A.A. Alonso and J.R. Banga (2008) Computational Procedures for Optimal Experimental Design in Biological Systems. IET Systems Biology 2(4):163-172.
29. Balsa-Canto, E., A.A. Alonso and J.R. Banga (2008) Computing optimal dynamic experiments for model calibration in predictive microbiology. J. Food Proc. Eng. 31:186-206.
28. Banga, J.R., E. Balsa-Canto, and A.A. Alonso (2008) Quality and Safety Models and Optimization as Part of Computer-Integrated Manufacturing. Comp. Rev. Food Sci. Food Saf. 7(1):168-174.
27. López R., Balsa-Canto E, Oñate E. (2008) neural networks for variational problems in engineering. Int. J. num. Meth. Eng. 75(11):1341-1360.
26. L.J. Alvarez-Vazquez, E. Balsa-Canto, A. Martinez (2008) Optimal design and operation of a wastewater purification system. Math. Comp. Sim. 79:668-682.

2007

25. Vera, J., E. Balsa-Canto, P. Wellstead, J. R. Banga and O. Wolkenhauer (2007) Power-Law Models of Signal Transduction Pathways. Cellular Signalling 19(7):1531-1541.
24. Balsa-Canto, E., M. Rodriguez-Fernandez and J.R. Banga (2007) Optimal design of dynamic experiments for improved estimation of kinetic parameters of thermal degradation. J. Food Eng. 82(2):178-188.
23. Rodríguez-Fernández, M., E. Balsa-Canto, J. A. Egea and J. R. Banga (2007) Identifiability and Robust Parameter Estimation in Food Process Modeling: Application to a Drying Model. J. Food Eng. , 83(3):374-383.

2006

22. M .S. G. García, E. Balsa-Canto, A. A. Alonso y J. R. Banga. Dynamic Optimization of nonlinear bioreactors. En: Taming Heterogeneity and Complexity of Embedded Control. Edited by: F. Lamnabhi-Lagarrigue, A. Loria, E. Panteley y S. Laghrouche. Cap. 18, Pag.307-329. Internacional Scientific & Technical Encyclopedia (ISTE), London. 2006.
21. E. Balsa-Canto, M. Rodríguez-Fernández, A. A. Alonso y J. R. Banga. Computational design of optimal dynamic experiments in systems biology: a case study in cell signaling. En: Understanding and Exploiting Systems Biology in Bioprocesses and Biomedicine. M Cánovas, J.L Iborra y A. Manjón Eds. Fundación CajaMurcia, ISBn 84-611-1135-4 Pags 103-118, 2006.
20. M. S. G. García, E. Balsa-Canto, J. R. Banga, A. A. Alonso (2006) Computing optimal operating procedures for the food industry. J. Food Eng. 74:13-23.
19. M. S. G. García, E. Balsa-Canto, A. Vande Wouwer, J. R. Banga (2006) Dynamic optimization of a Simulated Moving Bed (SMB) chromatographic separation process. Ind. Eng. Chem. Res. 45(26):9033-9041.

2005

18. J.R. Banga, E. Balsa-Canto, M. Rodríguez and A. A. Alonso (2005) Model calibration in Systems Biology. BioForum Europe 9:42-43.
17. E. Balsa-Canto, V. S. Vassiliadis, J. R. Banga (2005) Dynamic Optimization of Single and Multi-Stage Systems Using a Hybrid Stochastic-Deterministic Method. Ind. Eng. Chem. Res., 44(5):1514-1523.
16. J. R. Banga, E. Balsa-Canto, A. A. Alonso, C. G. Moles (2005) Dynamic optimization of bioprocesses: Efficient and robust numerical strategies. J. Biotechnol., 117(4):407-419.
15. E. Balsa-Canto, A. A. Alonso, J. R. Banga (2005) Dynamic optimization of complex distributed process systems. Chem. Eng. Res. and Des. 83(A8): 1-6.

2004

14. Balsa-Canto, E., J. R. Banga, A. A. Alonso and V. S. Vassiliadis (2004) Dynamic optimization of distributed parameter systems using second order directional derivatives. Ind. Eng. Chem. Res., 43(21):6756-6765.
13. Balsa-Canto, E., A. A. Alonso and J. R. Banga (2004) Reduced-order models for nonlinear distributed process systems and their application in dynamic optimization. Ind. Eng. Chem. Res., 43(13):3353-3363.

2003

12. Banga, J. R., E. Balsa-Canto, C. G. Moles and A. A. Alonso (2003) Dynamic Optimization of Bioreactors - a Review. Proc. Ind. natn. Sci. Ac. , 69A(3-4):257-265.
11. Banga, J. R.; Balsa-Canto, E.; Moles, C. G.; Alonso, A. A (2003) Improving food processing using modern optimization methods. Trends in Food Sci. and Tech., 14(4):131-144.

2002

10. E. Balsa-Canto, J. Mora, J. R. Banga y E. Oñate (2002) Computational Techniques in Food Engineering. CIMnE-UPC, Spain. ISBn 84-95999-13-7
9. J. R. Banga, E. Balsa-Canto, C. G. Moles, A. A. Alonso (2002) Global optimization in food process engineering. In: Computacional techniques in food engineering, 155-169. CIMnE-UPC, Spain, 2002.
8. A.A. Alonso, J. R. Banga, E. Balsa-Canto (2002) Model reduction of complex food processes with applications in control and optimization. In: Computacional techniques in food engineering, 155-169. CIMnE-UPC, Spain.
7. Wappling-Raaholt, B.; Scheerlinck, n.; Galt, S.; Banga, J. R.; Alonso, A.; Balsa-Canto, E.; Van Impe, J.; Ohlsson, T.; nicolai, B. M (2002) A Combined Electromagnetic and Heat Transfer Model for Heating of Foods in Microwave Combination Ovens. JMPEE, 37(2):97-111. 15.
6. Balsa-Canto, Eva, Antonio A. Alonso y Julio R. Banga (2002) A novel, efficient and reliable method for thermal process design and optimization. Part 1: theory. J. Food Eng., 52:227-234.
5. Balsa-Canto, Eva, Antonio A. Alonso y Julio R. Banga (2002) A novel, efficient and reliable method for thermal process design and optimization. Part 2: applications.J. Food Eng., 52:235-247.
4. Balsa-Canto, E., V. Vassiliadis, A. A. Alonso and J. R. Banga (2002). Restricted second order information for the solution of optimal control problems using control vector parameterization.J. Process Control 12(ER2):243-255.

2001

3. Balsa-Canto, E., Banga J.R., Alonso A.A. and Vassiliadis V.S. (2001) Dynamic optimization of chemical and biochemical processes using restricted second order information. Comp. & Chem. Eng. 25(4-6):539-546

2000

2. Balsa-Canto, E., J. R. Banga, A. A. Alonso and V. S. Vassiliadis (2000). Efficient optimal control of bioprocesses using second order information. Ind. Eng. Chem. Res. 39:4287-4295.

1999

1. Vassiliadis, V.S., E. Balsa-Canto and J. R. Banga (1999). Second order sensitivities of general dynamic systems with application to optimal control problems. Chem. Eng. Sci. 54(17):3851-3860.
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