Julio Rodriguez Banga
Biography
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Julio R. Banga obtained a MSc in Industrial Chemistry from the University of Santiago de Compostela (Spain) in 1988, and a PhD in Chemical Engineering from the same University in 1991. During 1992 he was a postdoc at the University of California, Davis. During the period 1993-1995 he was an Assistant Prof. of Chem. Eng. at the University of Vigo, and he also spent several short periods as visiting researcher at the University of Pennsylvania, MIT and UC Davis. In 1995, he obtained a tenured researcher position at the Spanish Council for Scientific Research (CSIC). Since 2009, he is a CSIC Research Professor. He co-founded (with Antonio A. Alonso) the BioProcess Engineering Group at IIM-CSIC (Vigo, Spain) in 1996, and was its leader until March-2022, when he moved to MBG-CSIC (Pontevedra, Spain) to create the Computational Biology Lab. |
Profile
| Institution | MBG |
| Position | CSIC Research Professor, leader of the Computational Biology Lab (MBG-CSIC) |
| Home page | https://www.bangalab.org/home |
| Contact email | j.r.banga@csic.es |
| ORCID | 0000-0002-4245-0320 |
Research
Research topics
Research lines
Projects, networks, transfer & teaching
Funded projects 13
- DATA-DRIVEN MECHANISTIC MODELLING, UNCERTAINTY QUANTIFICATION AND OPTIMISATION IN SYSTEMS BIOLOGY (DYNAMO-bio)
- ENHANCING THE COMPUTATIONAL BIOLOGY OF MICROORGANISMS AND PLANTS WITH NEW METHODS OF ARTIFICIAL INTELLIGENCE AND SUPERCOMPUTING (SuperBioComp)
- LARGE SCALE GLOBAL OPTIMIZATION IN SYSTEMS BIOLOGY (LarGO)
- DYNAMIC REGULATION ACROSS METABOLIC ENGINEERING SCALES. MULTI-MODEL INFERENCE AND DYNAMIC OPTIMALITY (BIODYNAMICS)
View all (9 more)
- Ensemble modelling in systems biology - from identification to uncertainty quantification in predictions and structure
- Design, analysis and optimization of biochemical pathways and genetic regulatory networks using stochastic models
- Generation of the CanPath prototype - a platform for predictive cancer pathway modeling
- Systematic Models for Biological Systems Engineering Training Network
- Design, characterization and optimal tuning of synthetic biocircuits for bioproduction with control of the metabolic load
- Synthetic biology to improve bioprocesses: design, optimization, monitoring and control
- From data to models: new bioinformatics methods and tools for data-driven predictive dynamic modelling in biotechnological applications
- Network for integrated cellular homeostasis
- Towards an understanding of dynamic transcriptional regulation at global scale in bacteria: a systems biology approach
Publications 194 entries
- Robust calibration of generalised Lotka-Volterra models Article · 2 Sep 2026
- Host-aware Identification of Intrinsic Gene Expression Biopart Parameters using Combinatorial Libraries Article · 11 Aug 2026
- Parallel ACO-VNS for the solution of binary combinatorial optimization problems in computational systems biology Article · Aug 2026
- Large-scale analysis of optimisation methods for parameter estimation problems in the life sciences Preprint · 13 Jul 2026
- Efficient cooperative strategies for parallel metaheuristics using MPI-3 features Article · 5 Mar 2026
View all (189 more)
- An adaptive multi-strategy metaheuristic for robust model calibration in large-scale systems biology Preprint · 30 Jan 2026
- Identification of dynamic models of microbial communities: A workflow addressing identifiability and modeling pitfalls Article · 1 Dec 2025
- Mechanistic dynamic modelling of biological systems: The road ahead Article · Dec 2025
- Parameter estimation in ODEs: assessing the potential of local and global solvers Article · 5 Jun 2025
- Conformal prediction for uncertainty quantification in dynamic biological systems Article · 12 May 2025
- A Parameter Control Strategy for Parallel Island‐Based Metaheuristics Article · 27 Apr 2025
- Generalized inverse optimal control and its application in biology Article · 2025
- Parameter estimation in a whole-brain network model of epilepsy: Comparison of parallel global optimization solvers Article · 11 Jul 2024
- Population based metaheuristics in Spark: Towards a general framework using PSO as a case study Article · Mar 2024
- Improved cooperative Ant Colony Optimization for the solution of binary combinatorial optimization applications Article · 29 Jan 2024
- Reusable rule-based cell cycle model explains compartment-resolved dynamics of 16 observables in RPE-1 cells Article · 8 Jan 2024
- IDESS: a toolbox for identification and automated design of stochastic gene circuits Article · 1 Nov 2023
- Distilling identifiable and interpretable dynamic models from biological data Article · 18 Oct 2023
- Automated Design of Synthetic Gene Circuits in the Presence of Molecular Noise Article · 9 Oct 2023
- Optimal evaluation of energy yield and driving force in microbial metabolic pathway variants Article · 6 Jul 2023
- Global Optimization Approach for Parameter Estimation in Stochastic Dynamic Models of Biosystems Article · 1 May 2023
- Assessment of Prediction Uncertainty Quantification Methods in Systems Biology Article · 1 May 2023
- Parallel ant colony optimization for the training of cell signaling networks Article · Dec 2022
- Improving dynamic predictions with ensembles of observable models Article · 23 Nov 2022
- OptDesign: Identifying Optimum Design Strategies in Strain Engineering for Biochemical Production Article · 7 Apr 2022
- Editorial overview: ‘Mathematical modelling of high-throughput and high-content data’ Article · Mar 2022
- An efficient ant colony optimization framework for HPC environments Article · Jan 2022
- Automated design of synthetic biocircuits in the stochastic regime Article · 2022
- AutoRepar: A method to obtain identifiable and observable reparameterizations of dynamic models with mechanistic insights Article · 18 Nov 2021
- A protocol for dynamic model calibration Article · 9 Oct 2021
- Editorial: Biological Control Systems and Disease Modeling Article · 9 Apr 2021
- PEtab - Interoperable specification of parameter estimation problems in systems biology Article · 26 Jan 2021
- Structural identifiability and observability of compartmental models of the COVID-19 pandemic Article · 2021
- Automated Biocircuit Design with SYNBADm Book / chapter · 2021
- Spark implementation of the enhanced Scatter Search metaheuristic: Methodology and assessment Article · Dec 2020
- Synthetic Gene Circuit Analysis and Optimization Book / chapter · 13 Nov 2020
- Using optimal control to understand complex metabolic pathways Article · 21 Oct 2020
- A dual-parameter identification approach for data-based predictive modeling of hybrid gene regulatory network-growth kinetics in Pseudomonas putida mt-2 Article · 6 May 2020
- Full observability and estimation of unknown inputs, states and parameters of nonlinear biological models Article · Jul 2019
- Hybrid parallel multimethod hyperheuristic for mixed-integer dynamic optimization problems in computational systems biology Article · 8 May 2019
- Computational Methods Enabling Next-Generation Bioprocesses Article · 12 Apr 2019
- Input-Dependent Structural Identifiability of Nonlinear Systems Article · Apr 2019
- Parameter estimation in models of biological oscillators: An automated regularised estimation approach Article · 15 Feb 2019
- Distilling Robust Design Principles of Biocircuits Using Mixed Integer Dynamic Optimization Article · 13 Feb 2019
- Multiobjective optimization of gene circuits for metabolic engineering Article · 2019
- A Comparison of Methods for Quantifying Prediction Uncertainty in Systems Biology Article · 2019
- Implementing cloud-based parallel metaheuristics: an overview Article · 12 Dec 2018
- Multimethod optimization for reverse engineering of complex biological networks Conference paper · 23 Sep 2018
- JaPitt/GEARS: Original release Software · 17 Sep 2018
- Benchmarking optimization methods for parameter estimation in large kinetic models Article · 23 Aug 2018
- CanPathPro-development of a platform for predictive pathway modelling using genetically engineered mouse models Article · 1 Jul 2018
- PREMER: A Tool to Infer Biological Networks Software · 1 Jul 2018
- Multimethod optimization in the cloud: A case-study in systems biology modelling Software · 30 Mar 2018
- Sufficiently Exciting Inputs for Structurally Identifiable Systems Biology Models Article · 2018
- Optimization-based prediction of fold bifurcations in nonlinear ODE models Article · 2018
- Mixed Integer Multiobjective Optimization Approaches for Systems and Synthetic Biology Article · 2018
- Critical Assessment of Parameter Estimation Methods in Models of Biological Oscillators Article · 2018
- Dynamical compensation and structural identifiability of biological models: Analysis, implications, and reconciliation Article · 29 Nov 2017
- A parallel metaheuristic for large mixed-integer dynamic optimization problems, with applications in computational biology Article · 15 Aug 2017
- Structural Properties of Dynamic Systems Biology Models: Identifiability, Reachability, and Initial Conditions Article · 2 Jun 2017
- Energy and society Book / chapter · 12 May 2017
- Parameter identifiability analysis and visualization in large-scale kinetic models of biosystems Software · 5 May 2017
- Using the cloud for parameter estimation problems: comparing spark vs MPI with a case-study Conference paper · May 2017
- A cloud-based enhanced differential evolution algorithm for parameter estimation problems in computational systems biology Article · 17 Apr 2017
- Automated Design Framework for Synthetic Biology Exploiting Pareto Optimality Article · 12 Apr 2017
- saCeSS2 - global mixed-integer optimization library version 2017A Software · 10 Feb 2017
- Data-driven reverse engineering of signaling pathways using ensembles of dynamic models Article · 6 Feb 2017
- Parameter estimation in large-scale systems biology models: A parallel and self-adaptive cooperative strategy Software · 21 Jan 2017
- Evaluation of parallel differential evolution implementations on MapReduce and spark Book / chapter · 2017
- Design Principles of Biological Oscillators through Optimization: Forward and Reverse Analysis Article · 15 Dec 2016
- Towards cloud-based parallel metaheuristics: A case study in computational biology with Differential Evolution and Spark Article · 28 Nov 2016
- SYNBADm: A tool for optimization-based automated design of synthetic gene circuits Software · 8 Jul 2016
- PREMER: Parallel reverse engineering of biological networks with information theory Book / chapter · 2016
- Implementing parallel differential evolution on spark Book / chapter · 2016
- Exploring Design Principles of Gene Regulatory Networks via Pareto Optimality Article · 2016
- Robust and efficient parameter estimation in dynamic models of biological systems Article · 29 Oct 2015
- Enabling network inference methods to handle missing data and outliers Article · 3 Sep 2015
- Enhanced parallel differential evolution algorithm for problems in computational systems biology Software · Aug 2015
- Reverse engineering of logic-based differential equation models using a mixed-integer dynamic optimization approach Article · 21 May 2015
- Reaction network realizations of rational biochemical systems and their structural properties Article · 15 May 2015
- Parallel metaheuristics in computational biology: An asynchronous Cooperative enhanced Scatter Search method Article · 2015
- Multicriteria global optimization for biocircuit design Article · 24 Sep 2014
- MEIGO: An open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics Software · 10 May 2014
- MIDER: Network inference with mutual information distance and entropy reduction Article · 7 May 2014
- Dynamics of an interactive network composed of a bacterial two-component system, a transporter and K+ as mediator Article · 28 Feb 2014
- Reverse engineering and identification in systems biology: Strategies, perspectives and challenges Article · 6 Feb 2014
- Optimization based design of synthetic oscillators from standard biological parts Book / chapter · 2014
- Improved parameter estimation in kinetic models: Selection and tuning of regularization methods Book / chapter · 2014
- A parallel differential evolution algorithm for parameter estimation in dynamic models of biological systems Book / chapter · 2014
- Simultaneous model discrimination and parameter estimation in dynamic models of cellular systems Article · 12 Aug 2013
- Computing all sparse kinetic structures for a Lorenz system using optimization Article · Aug 2013
- Reverse engineering cellular networks with information theoretic methods Article · 10 May 2013
- Robust Identification in Nonlinear Dynamic Process Models Other · Mar 2013
- Erratum: Characterizing multistationarity regimes in biochemical reaction networks (PLoS ONE (2013) 8:1 DOI: 10.1371/annotation/b5283cc5-5a93-4c96-abc4- c5112266fabe) Article · 15 Jan 2013
- On the verification and correction of large-scale kinetic models in systems biology Book / chapter · 2013
- Multi-criteria optimization of regulation in metabolic networks Article · 26 Jul 2012
- Characterizing multistationarity regimes in biochemical reaction networks Article · 3 Jul 2012
- A cooperative strategy for parameter estimation in large scale systems biology models Article · 22 Jun 2012
- CRNreals: A toolbox for distinguishability and identifiability analysis of biochemical reaction networks Article · 6 Apr 2012
- Novel global sensitivity analysis methodology accounting for the crucial role of the distribution of input parameters: Application to systems biology models Article · 6 Mar 2012
- 9th IFAC International Symposium on Dynamics and Control of Process Systems (DYCOPS) & 11th IFAC International Symposium on Computer Applications in Biotechnology (CAB): Leuven, Belgium, July 5-7, 2010 and July 7-9, 2010 Article · Dec 2011
- Detailed kinetic model describing new oligosaccharides synthesis using different β-galactosidases Article · May 2011
- Fuzzy finite element analysis of heat conduction problems with uncertain parameters Article · Mar 2011
- Inference of transcriptional control design of metabolic networks Article · Jan 2011
- Inference of complex biological networks: Distinguishability issues and optimization-based solutions Article · 2011
- Process Systems Engineering Book / chapter · 27 Oct 2010
- Preface: Volume 7: Dynamic Process Modeling Other · 27 Oct 2010
- A generalized Fisher equation and its utility in chemical kinetics Article · 6 Jul 2010
- Efficient and robust multi-objective optimization of food processing: A novel approach with application to thermal sterilization Article · Jun 2010
- Multi-objective mixed integer strategy for the optimisation of biological networks Article · 13 May 2010
- SensSB: a software toolbox for the development and sensitivity analysis of systems biology models Article · 5 May 2010
- An evolutionary method for complex-process optimization Article · Feb 2010
- Parametric condition for multistationarity in biochemical reaction networks Article · 2010
- Computational Procedures for Model Identification Book / chapter · 2010
- Extended ant colony optimization for non-convex mixed integer nonlinear programming Article · Jul 2009
- An extended ant colony optimization algorithm for integrated process and control system design Article · 9 Jun 2009
- Exploring Multiplicity Conditions in Enzymatic Reaction Networks Article · May 2009
- Extensions of a multistart clustering algorithm for constrained global optimization problems Article · 10 Feb 2009
- Multi-objective optimization of biological networks for prediction of intracellular fluxes Book / chapter · 2009
- Global sensitivity analysis of a biochemical pathway model Book / chapter · 2009
- A Library of Software Components for the Operation of Thermal Food Processing Plants Article · Dec 2008
- Exponential observers for distributed tubular (bio)rteactors Article · 7 Oct 2008
- Optimal tuning of thermodynamic-based decentralized PI control loops: Application to the tennessee eastman process Article · 6 Oct 2008
- Robust feed-back control of travelling waves in a class of reaction-diffusion distributed biological systems Article · Sep 2008
- Hierarchical design of decentralized control structures for the Tennessee Eastman Process Article · Sep 2008
- A Tabu search-based algorithm for mixed-integer nonlinear problems and its application to integrated process and control system design Article · Aug 2008
- Optimization in computational systems biology Article · 28 May 2008
- Optimal dynamic heat generation profiles for simultaneous estimation of thermal food properties using a hotwire probe: Computation, implementation and validation Article · Jan 2008
- Development of a library of components in ecosimpro for the operation of thermal processing plants,Desarrollo de una librería de componentes en ecosimpro para la operación de plantas de procesamiento térmico de alimentos Article · Jan 2008
- TECHNOLOGY AND SOCIETY Book / chapter · 2008
- The GLOBAL optimization method revisited Article · 30 Nov 2007
- Global Optimization for Integrated Design and Control of Computationally Expensive Process Models Article · 28 Nov 2007
- Improved scatter search for the global optimization of computationally expensive dynamic models Article · 7 Jul 2007
- Welcome and introduction Article · Jun 2007
- Robust feed-back control of distributed chemical reaction systems Article · Jun 2007
- Network theory in control engineering: Applications in dynamic analysis and process control,La teoría de redes en ingeniería de control: Aplicación al análisis dinámico y al control de procesos Article · Jan 2007
- Optimal dynamic experimental design in systems biology: Applications in cell signaling Article · 2007
- NBI-RPRGM for multi-objective optimization design of bio-processes Article · 2007
- Optimal field reconstruction of distributed process systems from partial measurements Article · 21 Dec 2006
- Novel metaheuristic for parameter estimation in nonlinear dynamic biological systems Article · 2 Nov 2006
- Scatter search for chemical and bio-process optimization Article · 7 Oct 2006
- Model based optimization of biochemical systems using multiple objectives: A comparison of several solution strategies Article · Oct 2006
- Improved optimization methods for the multiobjective design of bioprocesses Article · 2 Sep 2006
- Robust parameter estimation in a model for glucose kinetics in type 1 diabetes subjects Conference paper · Aug 2006
- Stabilization of inhomogeneous patterns in a diffusion-reaction system under structural and parametric uncertainties Article · Jul 2006
- A hybrid approach for efficient and robust parameter estimation in biochemical pathways Article · Feb 2006
- A thermodynamic based plant-wide control design procedure of the tennessee eastman process Book / chapter · 2006
- Dynamic optimization of single- and multi-stage systems using a hybrid Stochastic-deterministic method Article · 27 Jan 2005
- State reconstruction in spatially distributed BioProcess systems using reduced order models: Application to the gluconic acid production Conference paper · 2005
- A systematic approach to plant-wide control based on thermodynamics Book / chapter · 2005
- Solving nonconvex climate control problems: Pitfalls and algorithm performances Article · Dec 2004
- A model-based approach to develop periodic thermal treatments for surface decontamination of strawberries Article · Oct 2004
- Dynamic optimization of distributed parameter systems using second-order directional derivatives Article · 21 Sep 2004
- Reduced-order models for nonlinear distributed process systems and their application in dynamic optimization Article · 18 May 2004
- Optimal sensor location and reduced order observer design for distributed process systems Article · Jan 2004
- Global optimization of bioprocesses using stochastic and hybrid methods Book / chapter · 2004
- Chapter D4 Multi-objective integrated design and control using stochastic global optimization methods Book / chapter · 2004
- Dissipative systems: From physics to robust nonlinear control Article · 11 Dec 2003
- Integrated Nonlinear Optimization of Bioprocesses via Linear Programming Article · Dec 2003
- Dynamic optimization of double-sided cooking of meat patties Article · Jun 2003
- Integrated Process Design and Control Via Global Optimization Article · May 2003
- Parameter estimation in biochemical pathways: A comparison of global optimization methods Article · 1 Jan 2003
- Global optimization of climate control problems using evolutionary and stochastic algorithms Book / chapter · 2003
- From irreversible thermodynamics to a robust control theory for distributed process systems Article · Jun 2002
- Computation of optimal identification experiments for nonlinear dynamic process models: a stochastic global optimization approach Article · 17 Apr 2002
- A COMBINED ELECTROMAGNETIC AND HEAT TRANSFER MODEL FOR HEATING OF FOODS IN MICROWAVE COMBINATION OVENS Article · Jan 2002
- Robust nonlinear control design of distributed process systems with input constraints Article · 2002
- Optimal control of distributed processes using reduced order models Conference paper · Sep 2001
- Integrated process design and control via global optimization: A wastewater treatment plant case study Conference paper · Sep 2001
- On the optimal control of contact-cooking processes Article · Jun 2001
- Temperature control in microwave combination ovens Article · Oct 2000
- Optimization of hybrid discrete/continuous dynamic systems Article · Oct 2000
- Efficient optimal control of bioprocesses using second-order information Article · 29 Sep 2000
- Passive control design for distributed process systems: Theory and applications Article · Aug 2000
- Numerical strategies for optimal experimental design for parameter identification of non-linear dynamic (Bio-)chemical processes Book / chapter · 2000
- Modeling and adaptive control for batch sterilization Article · Feb 1998
- Rebuttal to the comments of Rein Luus on "Dynamic optimization of batch reactors using adaptive stochastic algorithms" Article · 1 Jan 1998
- Design of a class of stabilizing nonlinear state feedback controllers with bounded inputs Article · 1 Jan 1998
- Stochastic optimization for optimal and model-predictive control Article · 1998
- A hybrid method for the optimal control of chemical processes Conference paper · 1998
- Stochastic Dynamic Optimization of Batch and Semicontinuous Bioprocesses Article · 5 Jun 1997
- Dynamic Optimization of Batch Reactors Using Adaptive Stochastic Algorithms Article · 1 Jun 1997
- A complete dynamic model for the thermal processing of bioproducts in batch units and its application to controller design Article · Apr 1997
- Time-temperature effects on microbial, chemical and sensory changes during cooling and aging of cheddar cheese Book / chapter · 1995
- Optimal control of heat and mass transfer in food and bioproducts processing Article · Jan 1994
- OPTIMIZATION OF AIR-DRYING OF FOODS Article · Jan 1994
- ICRS/DS: A computer package for the optimization of batch processes and its applications in food processing Book / chapter · 1994
- Different strategies for controlling pressure during the cooling stage in batch retorts Book / chapter · 1994
- Computer aided design and optimization of sterilization of canned tuna Book / chapter · 1994
- Kinetics of thermal degradation of thiamine and surface colour in canned tuna Article · Aug 1993
- MATHEMATICAL-MODELING AND SIMULATION OF THE THERMAL-PROCESSING OF ANISOTROPIC AND NONHOMOGENEOUS CONDUCTION-HEATED CANNED FOODS - APPLICATION TO CANNED TUNA Article · Jan 1993
- DEGRADATION KINETICS OF PROTEIN DIGESTIBILITY AND AVAILABLE LYSINE DURING THERMAL-PROCESSING OF TUNA Article · Jul 1992
- Determination of thermal conductivity, specific heat and thermal diffusivity of albacore (Thunnus alalunga) Article · Dec 1989
- Prediction of precooking times for albacore (Thunnus alalunga) by computer simulation Article · Jan 1989
