Hidde de Jong : rechercher sur Z-Library

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1

Experiment selection for the discrimination of semi-quantitative models of dynamical systems

Ivayla Vatcheva, Hidde de Jong, Olivier Bernard, Nicolaas J.I. Mars

Journal:

Artificial Intelligence

Année:

2006

Langue:

english

Fichier:

PDF, 395 KB

english, 2006

2

Comparative envisionment construction: A technique for the comparative analysis of dynamical systems

Hidde de Jong, Frank van Raalte

Journal:

Artificial Intelligence

Année:

1999

Langue:

english

Fichier:

PDF, 655 KB

english, 1999

3

Qualitative simulation of genetic regulatory networks using piecewise-linear models

Hidde de Jong, Jean-Luc Gouzé, Céline Hernandez, Michel Page, Tewfik Sari, Johannes Geiselmann

Journal:

Bulletin of Mathematical Biology

Année:

2004

Langue:

english

Fichier:

PDF, 523 KB

english, 2004

4

The computer revolution in science: steps towards the realization of computer-supported discovery environments

Hidde de Jong, Arie Rip

Journal:

Artificial Intelligence

Année:

1997

Langue:

english

Fichier:

PDF, 2.55 MB

english, 1997

5

[Les Houches] Multiple Aspects of DNA and RNA:From Biophysics to Bioinformatics, École D'ÉtÉ de Physics des Houches Session LXXXII Volume 82 || Course 10Modeling, analysis, and simulation of genetic regulatory networks: From differential equations to logical models

Année:

2005

Langue:

english

Fichier:

PDF, 4.11 MB

english, 2005

6

Qualitative simulation and related approaches for the analysis of dynamic systems

Journal:

The Knowledge Engineering Review

Année:

2004

Langue:

english

Fichier:

PDF, 641 KB

english, 2004

7

Resource Reallocation in Bacteria by Reengineering the Gene Expression Machinery

de Jong, Hidde, Geiselmann, Johannes, Ropers, Delphine

Journal:

Trends in Microbiology

Année:

2017

Langue:

english

Fichier:

PDF, 1.81 MB

english, 2017

8

Dynamical modeling of biological regulatory networks

Claudine Chaouiya, Hidde de Jong, Denis Thieffry

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 91 KB

english, 2006

9

Symbolic reachability analysis of genetic regulatory networks using discrete abstractions

Grégory Batt, Hidde de Jong, Michel Page, Johannes Geiselmann

Journal:

Année:

2008

Langue:

english

Fichier:

PDF, 404 KB

english, 2008

10

Qualitative simulation of the carbon starvation response in Escherichia coli

Delphine Ropers, Hidde de Jong, Michel Page, Dominique Schneider, Johannes Geiselmann

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 1.02 MB

english, 2006

11

Qualitative simulation of the initiation of sporulation inBacillus subtilis

Hidde de Jong, Johannes Geiselmann, Grégory Batt, Céline Hernandez, Michel Page

Journal:

Bulletin of Mathematical Biology

Année:

2004

Langue:

english

Fichier:

PDF, 789 KB

english, 2004

12

A multi-scale constraint programming model of alternative splicing regulation

Damien Eveillard, Delphine Ropers, Hidde de Jong, Christiane Branlant, Alexander Bockmayr

Journal:

Theoretical Computer Science

Année:

2004

Langue:

english

Fichier:

PDF, 294 KB

english, 2004

13

CTRL: Extension of CTL with regular expressions and fairness operators to verify genetic regulatory networks

Radu Mateescu, Pedro T. Monteiro, Estelle Dumas, Hidde de Jong

Journal:

Theoretical Computer Science

Année:

2011

Langue:

english

Fichier:

PDF, 594 KB

english, 2011

14

The logic layout of the TOL network ofPseudomonas putidapWW0 plasmid stems from a metabolic amplifier motif (MAM) that optimizes biodegradation ofm-xylene

Rafael Silva-Rocha, Hidde de Jong, Javier Tamames, Víctor de Lorenzo

Journal:

BMC Systems Biology

Année:

2011

Langue:

english

Fichier:

PDF, 933 KB

english, 2011

15

Piecewise-linear Models of Genetic Regulatory Networks: Equilibria and their Stability

Richard Casey, Hidde de Jong, Jean-Luc Gouzé

Journal:

Journal of Mathematical Biology

Année:

2006

Langue:

english

Fichier:

PDF, 280 KB

english, 2006

16

Computer-Supported Resolution of Measurement Conflicts: A Case-Study in Materials Science

Hidde de Jong, Nicolaas Mars, Paul van der Vet

Journal:

Foundations of Science

Année:

1999

Langue:

english

Fichier:

PDF, 168 KB

english, 1999

17

Modeling and Simulation of Genetic Regulatory Systems: A Literature Review

Journal:

Journal of Computational Biology

Année:

2002

Langue:

english

Fichier:

PDF, 604 KB

english, 2002

18

Importance of metabolic coupling for the dynamics of gene expression following a diauxic shift in Escherichia coli

Valentina Baldazzi, Delphine Ropers, Johannes Geiselmann, Daniel Kahn, Hidde de Jong

Journal:

Journal of Theoretical Biology

Année:

2012

Langue:

english

Fichier:

PDF, 973 KB

english, 2012

19

A service-oriented architecture for integrating the modeling and formal verification of genetic regulatory networks

Pedro T Monteiro, Estelle Dumas, Bruno Besson, Radu Mateescu, Michel Page, Ana T Freitas, Hidde de Jong

Journal:

BMC Bioinformatics

Année:

2009

Langue:

english

Fichier:

PDF, 940 KB

english, 2009

20

Experimental and computational validation of models of fluorescent and luminescent reporter genes in bacteria

Hidde de Jong, Caroline Ranquet, Delphine Ropers, Corinne Pinel, Johannes Geiselmann

Journal:

BMC Systems Biology

Année:

2010

Langue:

english

Fichier:

PDF, 986 KB

english, 2010

21

Control of Bacteriophage Mu Lysogenic Repression

Caroline Ranquet, Ariane Toussaint, Hidde de Jong, Geneviève Maenhaut-Michel, Johannes Geiselmann

Journal:

Journal of Molecular Biology

Année:

2005

Langue:

english

Fichier:

PDF, 270 KB

english, 2005

22

Towards multiscale plant models: integrating cellular networks

Valentina Baldazzi, Nadia Bertin, Hidde de Jong, Michel Génard

Journal:

Trends in Plant Science

Année:

2012

Langue:

english

Fichier:

PDF, 1024 KB

english, 2012

23

Numerical simulation of piecewise-linear models of gene regulatory networks using complementarity systems

Acary, Vincent, de Jong, Hidde, Brogliato, Bernard

Journal:

Physica D: Nonlinear Phenomena

Année:

2014

Langue:

english

Fichier:

PDF, 1.66 MB

english, 2014

24

The Switching Threshold Reconstruction Problem for Piecewise-Affine Models of Genetic Regulatory Networks

Drulhe, Samuel, Ferrari-Trecate, Giancarlo, de Jong, Hidde

Journal:

IEEE Transactions on Automatic Control

Année:

2008

Langue:

english

Fichier:

PDF, 767 KB

english, 2008

25

Model Reduction Using Piecewise-Linear Approximations Preserves Dynamic Properties of the Carbon Starvation Response in Escherichia coli

Ropers, Delphine, Baldazzi, Valentina, de Jong, Hidde

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Année:

2011

Langue:

english

Fichier:

PDF, 2.26 MB

english, 2011

26

[IEEE 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) - HongKong, China (2010.12.18-2010.12.18)] 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) - Modeling and formal verification of biological regulatory networks: An integrative approach

Monteiro, Pedro T., Freitas, Ana T., Ropers, Delphine, Mateescu, Radu, de Jong, Hidde

Année:

2010

Langue:

english

Fichier:

PDF, 271 KB

english, 2010

27

Structural Identification of Piecewise-Linear Models of Genetic Regulatory Networks

Porreca, Riccardo, Drulhe, Samuel, Jong, Hidde de, Ferrari-Trecate, Giancarlo

Journal:

Journal of Computational Biology

Année:

2008

Langue:

english

Fichier:

PDF, 371 KB

english, 2008

28

Inference of Quantitative Models of Bacterial Promoters from Time-Series Reporter Gene Data

Stefan, Diana, Pinel, Corinne, Pinhal, Stéphane, Cinquemani, Eugenio, Geiselmann, Johannes, de Jong, Hidde, Ouzounis, Christos A.

Journal:

PLoS Computational Biology

Année:

2015

Langue:

english

Fichier:

PDF, 2.73 MB

english, 2015

29

The Carbon Assimilation Network in Escherichia coli Is Densely Connected and Largely Sign-Determined by Directions of Metabolic Fluxes

Baldazzi, Valentina, Ropers, Delphine, Markowicz, Yves, Kahn, Daniel, Geiselmann, Johannes, de Jong, Hidde, Kishony, Roy

Journal:

PLoS Computational Biology

Année:

2010

Langue:

english

Fichier:

PDF, 715 KB

english, 2010

30

Robust reconstruction of gene expression profiles from reporter gene data using linear inversion

Zulkower, Valentin, Page, Michel, Ropers, Delphine, Geiselmann, Johannes, de Jong, Hidde

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 837 KB

english, 2015

31

Identification of parameters and structure of piecewise affine models of genetic networks

Porreca, Riccardo, Drulhe, Samuel, de Jong, Hidde, Ferrari-Trecate, Giancarlo

Journal:

IFAC Proceedings Volumes

Année:

2009

Langue:

english

Fichier:

PDF, 293 KB

english, 2009

32

Importance of Metabolic Coupling for the Dynamics of Gene Expression Following a Diauxic Shift in E. coli

Baldazzi, Valentina, Ropers, Delphine, Geiselmann, Johannes, Kahn, Daniel, De Jong, Hidde

Journal:

IFAC Proceedings Volumes

Année:

2011

Langue:

english

Fichier:

PDF, 261 KB

english, 2011

33

Reduction of a Kinetic Model of the Carbon Starvation Response in Escherichia coli

Ropers, Delphine, Baldazzi, Valentina, de Jong, Hidde

Journal:

IFAC Proceedings Volumes

Année:

2009

Langue:

english

Fichier:

PDF, 346 KB

english, 2009

34

Mathematical modelling of microbes: metabolism, gene expression and growth

de Jong, Hidde, Casagranda, Stefano, Giordano, Nils, Cinquemani, Eugenio, Ropers, Delphine, Geiselmann, Johannes, Gouzé, Jean-Luc

Journal:

Journal of The Royal Society Interface

Année:

2017

Langue:

english

Fichier:

PDF, 754 KB

english, 2017

35

Dynamical Allocation of Cellular Resources as an Optimal Control Problem: Novel Insights into Microbial Growth Strategies

Giordano, Nils, Mairet, Francis, Gouzé, Jean-Luc, Geiselmann, Johannes, de Jong, Hidde, Igoshin, Oleg A

Journal:

PLoS Computational Biology

Année:

2016

Langue:

english

Fichier:

PDF, 909 KB

english, 2016

36

An ensemble of mathematical models showing diauxic growth behaviour

Kremling, Andreas, Geiselmann, Johannes, Ropers, Delphine, de Jong, Hidde

Journal:

BMC Systems Biology

Année:

2018

Langue:

english

Fichier:

PDF, 1.23 MB

english, 2018

37

Optimal control of bacterial growth for the maximization of metabolite production

Yegorov, Ivan, Mairet, Francis, de Jong, Hidde, Gouzé, Jean-Luc

Journal:

Journal of Mathematical Biology

Année:

2018

Langue:

english

Fichier:

PDF, 3.72 MB

english, 2018

38

Estimation of time-varying growth, uptake and excretion rates from dynamic metabolomics data

Cinquemani, Eugenio, Laroute, Valérie, Cocaign-Bousquet, Muriel, de Jong, Hidde, Ropers, Delphine

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 669 KB

english, 2017

39

Acetate metabolism and the inhibition of bacterial growth by acetate

Pinhal, Stéphane, Ropers, Delphine, Geiselmann, Johannes, de Jong, Hidde

Journal:

Journal of Bacteriology

Année:

2019

Langue:

english

Fichier:

PDF, 686 KB

english, 2019

40

Acetate metabolism and the inhibition of bacterial growth by acetate

Pinhal, Stéphane, Ropers, Delphine, Geiselmann, Johannes, de Jong, Hidde

Journal:

Journal of Bacteriology

Année:

2019

Fichier:

PDF, 686 KB

2019

41

WellInverter: a web application for the analysis of fluorescent reporter gene data

Martin, Yannick, Page, Michel, Blanchet, Christophe, de Jong, Hidde

Journal:

BMC Bioinformatics

Année:

2019

Langue:

english

Fichier:

PDF, 5.19 MB

english, 2019

42

WellInverter: a web application for the analysis of fluorescent reporter gene data

Martin, Yannick, Page, Michel, Blanchet, Christophe, de Jong, Hidde

Journal:

BMC Bioinformatics

Année:

2019

Fichier:

PDF, 5.19 MB

2019

43

ModÃ©lisation, analyse et simulationdes rÃ©seaux gÃ©nÃ©tiques

Thieffry, Denis, De Jong, Hidde

Journal:

médecine/sciences

Année:

2002

Fichier:

PDF, 160 KB

2002

44

Enhanced production of heterologous proteins by a synthetic microbial community: Conditions and trade-offs

Mauri, Marco, GouzÃ©, Jean-Luc, de Jong, Hidde, Cinquemani, Eugenio, Patil, Kiran Raosaheb

Journal:

PLoS Computational Biology

Année:

2020

Fichier:

PDF, 8.02 MB

2020