Publications

• Book chapter: 2023, Multi-Objective Optimization Tuning Framework for Kinetic Parameter Selection and Estimation,
  Reference: Computational Methods for Estimating the Kinetic Parameters of Biological Systems, Chapter:  4, Pages: –
  Editorial: Humana Press – 978-1-0716-1766-3,
  Authors: Boada-Acosta, Yadira Fernanda; Picó, Jesús; Vignoni, Alejandro

• Paper: 2023, PLATERO: A Calibration Protocol for Plate Reader Green Fluorescence Measurements,
  Journal: Frontiers in Bioengineering and Biotechnology, Number , Volume 11, Pagess: –
  DOI: https://doi.org/10.3389/fbioe.2023.1104445 – HANDLE: http://hdl.handle.net/10251/204157
  Authors: A. González-Cebrián; Borràs-Ferrís, Joan; Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; Ferrer, Alberto; Picó, Jesús
  

• Paper: 2022, Modeling and Optimization of a Molecular Biocontroller for the Regulation of Complex Metabolic Pathways,
  Journal: Frontiers in Molecular Biosciences, Number , Volume 9, Pagess: 1- 14
  DOI: https://doi.org/10.3389/fmolb.2022.801032 – HANDLE:
  Authors: Boada-Acosta, Yadira Fernanda; Santos-Navarro, Fernando Nóbel; Picó, Jesús; Vignoni, Alejandro
  

• Thesis: 2022, Multi-scale host-aware modeling for analysis and tuning of synthetic gene circuits for bioproduction
  Publication date: 20/05/2022
  Author: Fernando Nóbel Santos Navarro,
  Director/s: Picó, Jesús; Vignoni, Alejandro

• Paper: 2022, OneModel: an open-source SBML modeling tool focused on accessibility, simplicity and modularity,
  Journal: IFAC-PapersOnLine, Number , Volume , Pagess: 125- 130
  DOI: https://doi.org/10.1016/j.ifacol.2022.07.432 – HANDLE:
  Authors: Santos-Navarro, Fernando Nóbel; Navarro Herrero, José Luís; Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; Picó, Jesús
  

• Paper: 2022, Optimization of the dynamic regulation in a branch-in metabolic pathway,
  Journal: IFAC-PapersOnLine, Number , Volume , Pagess: 119- 124
  DOI: https://doi.org/10.1016/j.ifacol.2022.07.431 – HANDLE:
  Authors: Boada-Acosta, Yadira Fernanda; Santos-Navarro, Fernando Nóbel; Vignoni, Alejandro; Picó, Jesús
  

• Book chapter: 2021, Stochastic Differential Equations for Practical Simulation of Gene Circuits.,
  Reference: Synthetic Gene Circuits. Methods and Protocols, Chapter:  2, Pages: 41-
  Editorial: Springer- ISBN 978-1-0716-1031-2,
  Authors: Picó, Jesús; Vignoni, Alejandro; Boada-Acosta, Yadira Fernanda

• Paper: 2021, RBS and Promoter Strengths Determine the Cell-Growth-Dependent Protein Mass Fractions and Their Optimal Synthesis Rates,
  Journal: ACS Synthetic Biology, Number 12, Volume 10, Pagess: 3290- 3303
  DOI: 10.1021/acssynbio.1c00131 – HANDLE:
  Authors: Santos-Navarro, Fernando Nóbel; Vignoni, Alejandro; Boada-Acosta, Yadira Fernanda; Picó, Jesús
  

• Paper: 2021, Gene Expression Space Shapes the Bioprocess Trade-Offs among Titer, Yield and Productivity,
  Journal: Applied Sciences, Number 13, Volume 11, Pagess: 5859-
  DOI: https://doi.org/10.3390/app11135859 – HANDLE:
  Authors: Santos-Navarro, Fernando Nóbel; Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; Picó, Jesús
  

• Paper: 2020, Extended metabolic biosensor design for dynamic pathway regulation of cell factories,
  Journal: iScience, Number 7, Volume 23, Pagess: 1- 25
  DOI: https://doi.org/10.1016/j.isci.2020.101305 – HANDLE:
  Authors: Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; Picó, Jesús; Carbonell, Pablo
  

• Paper: 2020, Multiobjective Identification of a Feedback Synthetic Gene Circuit,
  Journal: IEEE Transactions on Control Systems Technology, Number 1, Volume 28, Pagess: 208- 223
  DOI: https://doi.org/10.1109/TCST.2018.2885694 – HANDLE:
  Authors: Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; Picó, Jesús
  

• Paper: 2019, Analysis of Transcriptional Feedback Strategy for Reducing Interaction in Gene Expression Processes,
  Journal: IFAC-PapersOnLine, Number 1, Volume 52, Pagess: 526- 531
  DOI: https://doi.org/10.1016/j.ifacol.2019.06.116 – HANDLE:
  Authors: Picó, Jesús; Nuñez, Sebastián; Garelli, Fabricio; De Battista, Hernán
  

• Paper: 2019, Biomolecular signal tracker with fast time response.,
  Journal: IFAC-PapersOnLine, Number 26, Volume 52, Pagess: 1- 6
  DOI: https://doi.org/10.1016/j.ifacol.2019.12.227 – HANDLE:
  Authors: De Battista, Hernán; Picó, Jesús; Picó-Marco, Enric ; Vignoni, Alejandro
  

• Paper: 2019, Characterization of gene circuits parts based on multi-objective optimization using standard calibrated measurements,
  Journal: ChemBioChem, Number , Volume 20, Pagess: 2653- 2665
  DOI: https://doi.org/10.1002/cbic.201900272 – HANDLE:
  Authors: Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; Ivan Alarcon-Ruiz; Carlos Andreu-Vilarroig; Roger Monfort-Llorens; Adrián Requena; Picó, Jesús
  

• Paper: 2019, Fluorescence calibration and color equivalence for quantitative synthetic biology,
  Journal: IFAC-PapersOnLine, Number 26, Volume 52, Pagess: 129- 134
  DOI: https://doi.org/10.1016/j.ifacol.2019.12.247 – HANDLE:
  Authors: Vignoni, Alejandro; Boada-Acosta, Yadira Fernanda; Lisset Boada-Acosta; Carlos Andreu-Vilarroig; Ivan Alarcon-Ruiz; Adrián Requena; Picó, Jesús
  

• Paper: 2019, Model mismatch in multi-objective optimisation and preservation of trade-off order,
  Journal: IFAC-PapersOnLine, Number 26, Volume 52, Pagess: 249- 254
  DOI: https://doi.org/10.1016/j.ifacol.2019.12.266 – HANDLE:
  Authors: Reynoso Meza, Gilberto; Vignoni, Alejandro; Boada-Acosta, Yadira Fernanda; Picó, Jesús; Picó-Marco, Enric
  

• Paper: 2019, Reference Conditioning Anti-windup for the Biomolecular Antithetic Controller,
  Journal: IFAC-PapersOnLine, Number 26, Volume 52, Pagess: 156- 162
  DOI: https://doi.org/10.1016/j.ifacol.2019.12.251 – HANDLE:
  Authors: Santos-Navarro, Fernando Nóbel; De Battista, Hernán; Nuñez, Sebastián; Picó, Jesús
  

• Thesis: 2018, A systems engineering approach to model, tune and test synthetic gene circuits
  Publication date: 10/10/2018
  Author: Yadira Fernanda Boada Acosta,
  Director/s: Picó, Jesús

• Paper: 2018, Flux-dependent graphs for metabolic networks,
  Journal: npj Systems Biology and Applications, Number 1, Volume 4, Pagess: 1- 14
  DOI: https://doi.org/10.1038/s41540-018-0067-y – HANDLE:
  Authors: Mariano Berguerisse-Diaz; BOSQUE-CHACON, GABRIEL; D. Oyarzún; Picó, Jesús; Mauricio Barahona
  

• Paper: 2018, Global stabilisation of continuous bioreactors: tools for analysis and design of feeding laws,
  Journal: Automatica, Number , Volume 89, Pagess: 340- 348
  DOI: https://doi.org/10.1016/j.automatica.2017.12.041 – HANDLE:
  Authors: De Battista, Hernán; Jamilis, M.; Garelli, Fabricio; Picó, Jesús
  

• Paper: 2018, Host-circuit interactions explain unexpected behavior of a gene circuit.,
  Journal: IFAC-PapersOnLine, Number 19, Volume 51, Pagess: 86- 89
  DOI: https://doi.org/10.1016/j.ifacol.2018.09.030 – HANDLE:
  Authors: Boada-Acosta, Yadira Fernanda; Vignoni, Alejandro; D. Oyarzún; Picó, Jesús
  

• Paper: 2018, Output Feedback Linearization of Turbidostats After Time Scaling,
  Journal: IEEE Transactions on Control Systems Technology, Number 4, Volume 27, Pagess: 1668- 1676
  DOI: https://doi.org/10.1109/TCST.2018.2834882 – HANDLE:
  Authors: De Battista, Hernán; Picó-Marco, Enric ; Santos-Navarro, Fernando Nóbel; Picó, Jesús