Eva Balsa Canto
Biography
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My scientific career began in 1997 with my PhD work at the (Bio)process Engineering group at IIM-CSIC. My PhD aimed at developing robust and efficient simulation and optimisation methods suited to the optimal control of food processes and bioprocesses. In 2001, I started my postdoctoral training at the International Centre for Numerical Methods in Engineering (CIMNE) and later in the Applied Mathematics II Dept.-University of Vigo. My research focused on 1) developing tools to simulate food processing, 2) defining concepts and tools based on artificial intelligence towards optimal control and 3) designing a hybrid global optimisation method. In 2005 I began to work in systems biology: modelling and identifying models of intracellular biochemical networks. Since then, I have worked from a multiscale perspective in the modelling and optimisation of bioprocesses and biological systems. From a theoretical point of view, I have developed concepts, methods and software tools to systematise the modelling and optimisation of dynamic systems. From a practical point of view, I have considered relevant food industry processes, used predictive microbiology for food quality and safety and systems biology to explain cellular metabolism in food biotechnology. Today, my research focuses on applying systems biology concepts to describe, predict and optimise biosystems and bioprocesses, mostly related to food biotechnology and, more recently, to ecosystems in aquaculture. My research asks a simple question: how can we build models of complex biosystems that are not only predictive, but also reliable enough to be used in practice? To address this, I work at the intersection of mechanistic modeling, machine learning, identifiability analysis, experimental design, and optimization. A central theme in my work is that good fits are not enough: models should be interpretable, supported by data, and useful for understanding, monitoring, and decision-making in real bioprocesses. I am also interested in how such models can support the development of digital twins for real-time monitoring, prediction, and process optimization. My main application areas include bioprocess systems, food biotechnology, fermentation or microbial communities. |
Profile
| Institution | IIM |
| Position | Research Scientist (Investigadora Científica), Bio2Eng Group Leader; Deputy Coordinator of the CSIC Scientific Area LIFE |
| Home page | https://iim.csic.es/en/staff/eva-maria-balsa-canto/ |
| Contact email | ebalsa@iim.csic.es |
| ORCID | 0000-0002-1978-2626 |
BCB Hub
| BCB Committee | Not a member |
| BCB Tools | microracle, AMIGO2: Advanced model identification using global optimization, GenSSI 2.0 |
| BCB Services |
Research
Research topics
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Research lines
Projects, networks, transfer & teaching
Teaching
Master programs
- Master in Industrial Mathematics (M2i) - interuniversity (USC, UDC, UVigo, UC3M, UPM)
Publications 94 entries
- Quantifying and managing uncertainty in systems biology: Mechanistic and data-driven models Article · Dec 2025
- Identification of dynamic models of microbial communities Preprint · 11 Jun 2025
- Temperature-Dependent Kinetic Modeling of Nitrogen-Limited Batch Fermentation by Yeast Species Article · 23 Apr 2025
- Combined Isotopic Tracer and Modelling Approach Reveals Differences in Nitrogen Metabolism in S. cerevisiae, S. uvarum and S. kudriavzevii Species Article · Apr 2025
- Multi-omic data and modelling analyses reveal that HAP complex integrates TORC1/PKA and SNF1 signalling pathways Preprint · 17 Oct 2023
View all (89 more)
- Mechanisms of Listeria monocytogenes Disinfection with Benzalkonium Chloride: From Molecular Dynamics to Kinetics of Time-Kill Curves Article · 28 Jul 2023
- A Dynamic Genome-Scale Model Identifies Metabolic Pathways Associated with Cold Tolerance in Saccharomyces kudriavzevii Article · 15 Jun 2023
- Dynamic genome‐scale modeling of Saccharomyces cerevisiae unravels mechanisms for ester formation during alcoholic fermentation Article · 9 May 2023
- Modelling the physiological status of yeast during wine fermentation enables the prediction of secondary metabolism Article · Feb 2023
- Development of a toxicokinetic-toxicodynamic model simulating chronic copper toxicity to the Zebra mussel based on subcellular fractionation Article · Dec 2021
- Modelling chronic toxicokinetics and toxicodynamics of copper in mussels considering ionoregulatory homeostasis and oxidative stress Article · Oct 2021
- The Monod Model Is Insufficient To Explain Biomass Growth in Nitrogen-Limited Yeast Fermentation Article · 28 Sep 2021
- A multiphase multiobjective dynamic genome-scale model shows different redox balancing among yeast species of the saccharomyces genus in fermentation Article · 31 Aug 2021
- Optimal Experimental Design for Systems and Synthetic Biology Using AMIGO2 Book / chapter · 2021
- A Cyber-Physical Platform for Model Calibration Book / chapter · 2021
- Optimally designed model selection for synthetic biology Article · 5 Nov 2020
- A two-dimensional multi-species model for different Listeria monocytogenes biofilm structures and its numerical simulation Article · Nov 2020
- Temperature Shapes Ecological Dynamics in Mixed Culture Fermentations Driven by Two Species of the Saccharomyces Genus Article · 21 Aug 2020
- Model-Based Real Time Operation of the Freeze-Drying Process Article · 10 Mar 2020
- Mechanistic simulation of bioconcentration kinetics of waterborne Cd, Ag, Pd, and Pt in the zebra mussel Dreissena polymorpha Article · Mar 2020
- Mixed growth curve data do not suffice to fully characterize the dynamics of mixed cultures Article · 24 Dec 2019
- Information content analysis reveals desirable aspects of in vivo experiments of a synthetic circuit Conference paper · Jul 2019
- Bayesian model selection in synthetic biology: Factor levels and observation functions Article · 2019
- Optimally designed vs intuition-driven inputs: the study case of promoter activity modelling Conference paper · Dec 2018
- Development of a PBPK Model for Silver Accumulation in Chub Infected with Acanthocephalan Parasites Article · 25 Sep 2018
- On-line optimal input design increases the efficiency and accuracy of the modelling of an inducible synthetic promoter Article · 1 Sep 2018
- Erratum: Optimality and identification of dynamic models in systems biology: an inverse optimal control framework (Bioinformatics (Oxford, England) (2018) 34 14 (2433-2440)) Article · 15 Jun 2018
- Optimality and identification of dynamic models in systems biology: an inverse optimal control framework Article · 7 Mar 2018
- Saccharomyces cerevisiae and S. kudriavzevii synthetic wine fermentation performance dissected by predictive modeling Article · 2 Feb 2018
- GenSSI 2.0: Multi-experiment structural identifiability analysis of SBML models Software · 30 Nov 2017
- Modeling reveals the role of aging and glucose uptake impairment in L1A1 Listeria monocytogenes biofilm life cycle Article · 1 Nov 2017
- Smart sensor to predict retail fresh fish quality under ice storage Article · Mar 2017
- Numerical methods for a nonlinear reaction–diffusion system modelling a batch culture of biofilm Article · Jan 2017
- A normalisation strategy to optimally design experiments in computational biology Book / chapter · 2017
- On the relationship between sloppiness and identifiability Article · Dec 2016
- Quantitative image analysis to characterize the dynamics of Listeria monocytogenes biofilms Article · Nov 2016
- AMIGO2, a toolbox for dynamic modeling, optimization and control in systems biology Software · 4 Jul 2016
- Toward predictive food process models: A protocol for parameter estimation Article · 31 May 2016
- Metabolic engineering with multi-objective optimization of kinetic models Article · Mar 2016
- Modeling and optimization techniques with applications in food processes, bio-processes and bio-systems Book / chapter · 2016
- Quality and shelf-life prediction for retail fresh hake (Merluccius merluccius) Article · Sep 2015
- Optimal programs of pathway control: Dissecting the influence of pathway topology and feedback inhibition on pathway regulation Article · 16 May 2015
- A consensus approach for estimating the predictive accuracy of dynamic models in biology Article · Apr 2015
- BioPreDyn-bench: A suite of benchmark problems for dynamic modelling in systems biology Article · 20 Feb 2015
- Time-temperature integrators as predictive temperature sensors Article · Oct 2014
- Numerical spatio-temporal characterization of Listeria monocytogenes biofilms Article · Jul 2014
- Global dynamic optimization approach to predict activation in metabolic pathways Article · 6 Jan 2014
- High-confidence predictions in systems biology dynamic models Book / chapter · 2014
- Quality and safety driven optimal operation of deep-fat frying of potato chips Article · Nov 2013
- Reverse-Engineering Post-Transcriptional Regulation of Gap Genes in Drosophila melanogaster Article · 31 Oct 2013
- Real time optimization for quality control of batch thermal sterilization of prepackaged foods Article · Aug 2013
- Optimal regulatory programs for the control of metabolic pathways: The case of feedback inhibition Conference paper · Jun 2013
- Dynamic Optimization of Nonlinear Bioreactors Other · Mar 2013
- Dynamic optimization of distributed biological systems using robust and efficient numerical techniques Article · 2 Jul 2012
- Robust and efficient numerical methods for the optimal control of spatially distributed biological systems Conference paper · Jul 2012
- Structural identifiability of systems biology models: A critical comparison of methods Article · 22 Nov 2011
- Global optimization in systems biology: Stochastic methods and their applications Book / chapter · 18 Nov 2011
- GenSSI: A software toolbox for structural identifiability analysis of biological models Article · 22 Jul 2011
- Use of a generalized fisher equation for global optimization in chemical kinetics Article · 14 Jul 2011
- AMIGO, a toolbox for advanced model identification in systems biology using global optimization Article · 17 Jun 2011
- Methods for checking structural identifiability of nonlinear biosystems: A critical comparison Article · Jan 2011
- On-line estimation in a distributed parameter bioreactor: Application to the gluconic acid production Article · Jan 2011
- Prediction of activation of metabolic pathways via dynamic optimization Book / chapter · 2011
- Dynamic Model Building Using Optimal Identification Strategies, with Applications in Bioprocess Engineering Other · 27 Oct 2010
- Investigating dynamics of inhibitory and feedback loops in ERK signalling using power-law models Article · 18 Aug 2010
- Generic parameterization for a pharmacokinetic model to predict Cd concentrations in several tissues of different fish species Article · Apr 2010
- Dynamic multi-compartmental modelling of metal bioaccumulation in fish: Identifiability implications Article · Mar 2010
- An iterative identification procedure for dynamic modeling of biochemical networks Article · 17 Feb 2010
- AMIGO: A model identification toolbox based on global optimization and its applications in biosystems Article · 2010
- DOTcvpSB, a software toolbox for dynamic optimization in systems biology Article · 29 Jun 2009
- Dynamic optimization of nonlinear processes with an enhanced scatter search method Article · 3 Apr 2009
- Optimal design and operation of a wastewater purification system Article · Dec 2008
- Parameter estimation and optimal experimental design Article · 30 Sep 2008
- Computational procedures for optimal experimental design in biological systems Article · 14 Jul 2008
- Hybrid optimization method with general switching strategy for parameter estimation Article · 24 Mar 2008
- Computing optimal dynamic experiments for model calibration in predictive microbiology Article · 24 Feb 2008
- Neural networks for variational problems in engineering Article · 19 Feb 2008
- Quality and safety models and optimization as part of computer-integrated manufacturing Article · Jan 2008
- Identifiability and robust parameter estimation in food process modeling: Application to a drying model Article · Dec 2007
- Optimal design of dynamic experiments for improved estimation of kinetic parameters of thermal degradation Article · Sep 2007
- Power-law models of signal transduction pathways Article · Jul 2007
- Optimal control of the Simulated Moving Bed (SMB) chromatographic separation process Article · 2007
- Computing optimal operating policies for the food industry Article · May 2006
- Dynamic optimization of complex distributed process systems Article · Jun 2005
- Dynamic optimization of bioprocesses: Efficient and robust numerical strategies Article · Jun 2005
- An efficient real-time dynamic optimization architecture for the control of non-isothermal tubular reactors Book / chapter · 2005
- A software toolbox for the dynamic optimization of nonlinear processes Book / chapter · 2005
- On systematic model reduction techniques for dynamic optimization and robust control of distributed process systems Book / chapter · 2004
- Improving food processing using modern optimization methods Article · Apr 2003
- A novel, efficient and reliable method for thermal process design and optimization. Part I: theory Article · May 2002
- A novel, efficient and reliable method for thermal process design and optimization. Part II: Applications Article · May 2002
- Restricted second order information for the solution of optimal control problems using control vector parameterization Article · Feb 2002
- Dynamic optimization of chemical and biochemical processes using restricted second-order information Article · May 2001
- Second-order sensitivities of general dynamic systems with application to optimal control problems Article · Sep 1999
