Hidde de Jong

ORCID

Publication Activity (10 Years)

Years Active: 1996-2022
Publications (10 Years): 9

Top Venues

University of Twente, Enschede, Netherlands (PHD)

Education History

University of Twente, Enschede, Netherlands

PHD

Publications

Agustín Gabriel Yabo, Jean-Baptiste Caillau, Jean-Luc Gouzé, Hidde de Jong, Francis Mairet
Dynamical Analysis and Optimization of a Generalized Resource Allocation Model of Microbial Growth. SIAM J. Appl. Dyn. Syst. 21 (1) (2022)
Marco Mauri, Jean-Luc Gouzé, Hidde de Jong, Eugenio Cinquemani
Enhanced production of heterologous proteins by a synthetic microbial community: Conditions and trade-offs. PLoS Comput. Biol. 16 (4) (2020)
Eugenio Cinquemani, Francis Mairet, I. Yegorov, Hidde de Jong, Jean-Luc Gouzé
Optimal control of bacterial growth for metabolite production: The role of timing and costs of control. ECC (2019)
Yannick Martin, Michel Page, Christophe Blanchet, Hidde de Jong
WellInverter: a web application for the analysis of fluorescent reporter gene data. BMC Bioinform. 20 (1) (2019)
Andreas Kremling, Johannes Geiselmann, Delphine Ropers, Hidde de Jong
An ensemble of mathematical models showing diauxic growth behaviour. BMC Syst. Biol. 12 (1) (2018)
Eugenio Cinquemani, Valérie Laroute, Muriel Cocaign-Bousquet, Hidde de Jong, Delphine Ropers
Estimation of time-varying growth, uptake and excretion rates from dynamic metabolomics data. Bioinform. 33 (14) (2017)
Nils Giordano, Francis Mairet, Jean-Luc Gouzé, Johannes Geiselmann, Hidde de Jong
Dynamical Allocation of Cellular Resources as an Optimal Control Problem: Novel Insights into Microbial Growth Strategies. PLoS Comput. Biol. 12 (3) (2016)
Valentin Zulkower, Michel Page, Delphine Ropers, Johannes Geiselmann, Hidde de Jong
Robust reconstruction of gene expression profiles from reporter gene data using linear inversion. Bioinform. 31 (12) (2015)
Diana Stefan, Corinne Pinel, Stéphane Pinhal, Eugenio Cinquemani, Johannes Geiselmann, Hidde de Jong
Inference of Quantitative Models of Bacterial Promoters from Time-Series Reporter Gene Data. PLoS Comput. Biol. 11 (1) (2015)
Hidde de Jong, Johannes Geiselmann
Fluorescent Reporter Genes and the Analysis of Bacterial Regulatory Networks. HSB (2014)
Claudine Chaouiya, Duncan Bérenguier, Sarah M. Keating, Aurélien Naldi, Martijn P. van Iersel, Nicolas Rodriguez, Andreas Dräger, Finja Büchel, Thomas Cokelaer, Bryan M. Kowal, Benjamin Wicks, Emanuel J. V. Gonçalves, Julien Dorier, Michel Page, Pedro T. Monteiro, Axel von Kamp, Ioannis Xenarios, Hidde de Jong, Michael Hucka, Steffen Klamt, Denis Thieffry, Nicolas Le Novère, Julio Saez-Rodriguez, Tomás Helikar
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. BMC Syst. Biol. 7 (2013)
Rafael Silva-Rocha, Hidde de Jong, Javier Tamames, Víctor de Lorenzo
The logic layout of the TOL network of Pseudomonas putida pWW0 plasmid stems from a metabolic amplifier motif (MAM) that optimizes biodegradation of m-xylene. BMC Syst. Biol. 5 (2011)
Radu Mateescu, Pedro T. Monteiro, Estelle Dumas, Hidde de Jong
CTRL: Extension of CTL with regular expressions and fairness operators to verify genetic regulatory networks. Theor. Comput. Sci. 412 (26) (2011)
Delphine Ropers, Valentina Baldazzi, Hidde de Jong
Model Reduction Using Piecewise-Linear Approximations Preserves Dynamic Properties of the Carbon Starvation Response in Escherichia coli. IEEE ACM Trans. Comput. Biol. Bioinform. 8 (1) (2011)
Sara Berthoumieux, Matteo Brilli, Hidde de Jong, Daniel Kahn, Eugenio Cinquemani
Identification of metabolic network models from incomplete high-throughput datasets. Bioinform. 27 (13) (2011)
Hidde de Jong, Caroline Ranquet, Delphine Ropers, Corinne Pinel, Johannes Geiselmann
Experimental and computational validation of models of fluorescent and luminescent reporter genes in bacteria. BMC Syst. Biol. 4 (2010)
Valentina Baldazzi, Delphine Ropers, Yves Markowicz, Daniel Kahn, Johannes Geiselmann, Hidde de Jong
Is Densely Connected and Largely Sign-Determined by Directions of Metabolic Fluxes. PLoS Comput. Biol. 6 (6) (2010)
Pedro T. Monteiro, Ana T. Freitas, Delphine Ropers, Radu Mateescu, Hidde de Jong
Modeling and formal verification of biological regulatory networks: An integrative approach. BIBM Workshops (2010)
Frédéric Boyer, Bruno Besson, Guillaume Baptist, Jérôme Izard, Corinne Pinel, Delphine Ropers, Johannes Geiselmann, Hidde de Jong
WellReader: a MATLAB program for the analysis of fluorescence and luminescence reporter gene data. Bioinform. 26 (9) (2010)
Grégory Batt, Michel Page, Irene Cantone, Gregor Goessler, Pedro T. Monteiro, Hidde de Jong
Efficient parameter search for qualitative models of regulatory networks using symbolic model checking. Bioinform. 26 (18) (2010)
Pedro T. Monteiro, Estelle Dumas, Bruno Besson, Radu Mateescu, Michel Page, Ana T. Freitas, Hidde de Jong
A service-oriented architecture for integrating the modeling and formal verification of genetic regulatory networks. BMC Bioinform. 10 (2009)
Samuel Drulhe, Giancarlo Ferrari-Trecate, Hidde de Jong
The Switching Threshold Reconstruction Problem for Piecewise-Affine Models of Genetic Regulatory Networks. IEEE Trans. Autom. Control. 53 (2008)
Hidde de Jong, Michel Page
Search for Steady States of Piecewise-Linear Differential Equation Models of Genetic Regulatory Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 5 (2) (2008)
Hidde de Jong
Qualitative Modeling and Simulation of Bacterial Regulatory Networks. CMSB (2008)
Grégory Batt, Hidde de Jong, Michel Page, Johannes Geiselmann
Symbolic reachability analysis of genetic regulatory networks using discrete abstractions. Autom. 44 (4) (2008)
Riccardo Porreca, Samuel Drulhe, Hidde de Jong, Giancarlo Ferrari-Trecate
Structural Identification of Piecewise-Linear Models of Genetic Regulatory Networks. J. Comput. Biol. 15 (10) (2008)
Radu Mateescu, Pedro T. Monteiro, Estelle Dumas, Hidde de Jong
Computation Tree Regular Logic for Genetic Regulatory Networks. ATVA (2008)
Pedro T. Monteiro, Delphine Ropers, Radu Mateescu, Ana T. Freitas, Hidde de Jong
Temporal Logic Patterns for Querying Qualitative Models of Genetic Regulatory Networks. ECAI (2008)
Pedro T. Monteiro, Delphine Ropers, Radu Mateescu, Ana T. Freitas, Hidde de Jong
Temporal logic patterns for querying dynamic models of cellular interaction networks. ECCB (2008)
M. W. J. M. Musters, Hidde de Jong, P. P. J. van den Bosch, Natal A. W. van Riel
Qualitative Analysis of Nonlinear Biochemical Networks with Piecewise-Affine Functions. HSCC (2007)
Grégory Batt, Hidde de Jong, Johannes Geiselmann, Jean-Luc Gouzé, Michel Page, Delphine Ropers, Sari Tewfik, Dominique Schneider
Analyse qualitative de la dynamique de réseaux de régulation génique par des modèles linéaires par morceaux. Tech. Sci. Informatiques 26 (1-2) (2007)
Ivayla Vatcheva, Hidde de Jong, Olivier Bernard, Nicolaas J. I. Mars
Experiment selection for the discrimination of semi-quantitative models of dynamical systems. Artif. Intell. 170 (4-5) (2006)
Samuel Drulhe, Giancarlo Ferrari-Trecate, Hidde de Jong, Alain Viari
Reconstruction of Switching Thresholds in Piecewise-Affine Models of Genetic Regulatory Networks. HSCC (2006)
Hidde de Jong, Delphine Ropers
Strategies for dealing with incomplete information in the modeling of molecular interaction networks. Briefings Bioinform. 7 (4) (2006)
Grégory Batt, Delphine Ropers, Hidde de Jong, Johannes Geiselmann, Radu Mateescu, Michel Page, Dominique Schneider
Analysis and Verification of Qualitative Models of Genetic Regulatory Networks: A Model-Checking Approach. IJCAI (2005)
Richard Casey, Hidde de Jong, Jean-Luc Gouzé
Stability of Equilibria for Piecewise-linear Models of Genetic Regulatory Networks. CDC/ECC (2005)
Grégory Batt, Delphine Ropers, Hidde de Jong, Johannes Geiselmann, Michel Page, Dominique Schneider
Qualitative Analysis and Verification of Hybrid Models of Genetic Regulatory Networks: Nutritional Stress Response in. HSCC (2005)
Grégory Batt, Delphine Ropers, Hidde de Jong, Johannes Geiselmann, Radu Mateescu, Michel Page, Dominique Schneider
. ISMB (Supplement of Bioinformatics) (2005)
Hidde de Jong
Qualitative simulation and related approaches for the analysis of dynamic systems. Knowl. Eng. Rev. 19 (2) (2004)
Grégory Batt, Damien Bergamini, Hidde de Jong, Hubert Garavel, Radu Mateescu
Model Checking Genetic Regulatory Networks Using GNA and CADP. SPIN (2004)
Damien Eveillard, Delphine Ropers, Hidde de Jong, Christiane Branlant, Alexander Bockmayr
A multi-scale constraint programming model of alternative splicing regulation. Theor. Comput. Sci. 325 (1) (2004)
Hidde de Jong, Johannes Geiselmann, Céline Hernandez, Michel Page
Genetic Network Analyzer: qualitative simulation of genetic regulatory networks. Bioinform. 19 (3) (2003)
Damien Eveillard, Delphine Ropers, Hidde de Jong, Christiane Branlant, Alexander Bockmayr
Multiscale Modeling of Alternative Splicing Regulation. CMSB (2003)
Hidde de Jong, Jean-Luc Gouzé, Céline Hernandez, Michel Page, Sari Tewfik, Johannes Geiselmann
Hybrid Modeling and Simulation of Genetic Regulatory Networks: A Qualitative Approach. HSCC (2003)
Hidde de Jong
Modeling and Simulation of Genetic Regulatory Networks. POSTA (2003)
Hidde de Jong
Modeling and Simulation of Genetic Regulatory Systems: A Literature Review. J. Comput. Biol. 9 (1) (2002)
Hidde de Jong, Jean-Luc Gouzé, Céline Hernandez, Michel Page, Sari Tewfik, Johannes Geiselmann
Dealing with Discontinuities in the Qualitative Simulation of Genetic Regulatory Networks. ECAI (2002)
Ivayla Vatcheva, Olivier Bernard, Hidde de Jong, Jean-Luc Gouzé, Nicolaas J. I. Mars
Discrimination of Semi-Quantitative Models by Experiment Selection: Method and Application in Population Biology. IJCAI (2001)
Hidde de Jong, Michel Page, Céline Hernandez, Johannes Geiselmann
Qualitative Simulation of Genetic Regulatory Networks: Method and Application. IJCAI (2001)
Hidde de Jong, Michel Page
Qualitative Simulation of Large and Complex Genetic Regulation Systems. ECAI (2000)
Ivayla Vatcheva, Hidde de Jong, Nicolaas J. I. Mars
Selection of Perturbation Experiments for Model Discrimination. ECAI (2000)
Hidde de Jong, Frank van Raalte
Comparative envisionment construction: A technique for the comparative analysis of dynamical systems. Artif. Intell. 115 (2) (1999)
Ivayla Vatcheva, Hidde de Jong
Semi-Quantitative Comparative Analysis. IJCAI (1999)
Hidde de Jong, Arie Rip
The Computer Revolution in Science: Steps Towards the Realization of Computer-Supported Discovery Environments. Artif. Intell. 91 (2) (1997)
Hidde de Jong, Frank van Raalte
Comparative Analysis of STructurally Different Dynamical Systems. IJCAI (1) (1997)
Hidde de Jong, Nicolaas J. I. Mars, Paul E. van der Vet
CEC: Comparative Analysis by Envisionment Construction. ECAI (1996)

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Publication Activity (10 Years)

Top Topics

Top Venues

Hidde de Jong