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

Por de Jong, Hidde, Ranquet, Caroline, Ropers, Delphine, Pinel, Corinne, Geiselmann, Johannes
Publicado em 2010

Identification of metabolic network models from incomplete high-throughput datasets

Por Berthoumieux, Sara, Brilli, Matteo, de Jong, Hidde, Kahn, Daniel, Cinquemani, Eugenio
Publicado em 2011

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

Por Silva-Rocha, Rafael, de Jong, Hidde, Tamames, Javier, de Lorenzo, Víctor
Publicado em 2011

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

Por Zulkower, Valentin, Page, Michel, Ropers, Delphine, Geiselmann, Johannes, de Jong, Hidde
Publicado no Bioinformatics (2015)

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

Por Giordano, Nils, Mairet, Francis, Gouzé, Jean-Luc, Geiselmann, Johannes, de Jong, Hidde
Publicado no PLoS Comput Biol (2016)

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

Por Baldazzi, Valentina, Ropers, Delphine, Markowicz, Yves, Kahn, Daniel, Geiselmann, Johannes, de Jong, Hidde
Publicado em 2010

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

Por Baldazzi, Valentina, Ropers, Delphine, Markowicz, Yves, Kahn, Daniel, Geiselmann, Johannes, de Jong, Hidde
Publicado em 2010

Efficient parameter search for qualitative models of regulatory networks using symbolic model checking

Por Batt, Gregory, Page, Michel, Cantone, Irene, Goessler, Gregor, Monteiro, Pedro, de Jong, Hidde
Publicado em 2010

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

Por Stefan, Diana, Pinel, Corinne, Pinhal, Stéphane, Cinquemani, Eugenio, Geiselmann, Johannes, de Jong, Hidde
Publicado no PLoS Comput Biol (2015)

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

Por Monteiro, Pedro T, Dumas, Estelle, Besson, Bruno, Mateescu, Radu, Page, Michel, Freitas, Ana T, de Jong, Hidde
Publicado em 2009

Shared control of gene expression in bacteria by transcription factors and global physiology of the cell

Por Berthoumieux, Sara, de Jong, Hidde, Baptist, Guillaume, Pinel, Corinne, Ranquet, Caroline, Ropers, Delphine, Geiselmann, Johannes
Publicado em 2013

A genome-wide screen for identifying all regulators of a target gene

Por Baptist, Guillaume, Pinel, Corinne, Ranquet, Caroline, Izard, Jérôme, Ropers, Delphine, de Jong, Hidde, Geiselmann, Johannes
Publicado em 2013

Mass Spectrometry-based Workflow for Accurate Quantification of Escherichia coli Enzymes: How Proteomics Can Play a Key Role in Metabolic Engineering

Por Trauchessec, Mathieu, Jaquinod, Michel, Bonvalot, Aline, Brun, Virginie, Bruley, Christophe, Ropers, Delphine, de Jong, Hidde, Garin, Jérôme, Bestel-Corre, Gwenaëlle, Ferro, Myriam
Publicado em 2014

A synthetic growth switch based on controlled expression of RNA polymerase

Por Izard, Jérôme, Gomez Balderas, Cindy DC, Ropers, Delphine, Lacour, Stephan, Song, Xiaohu, Yang, Yifan, Lindner, Ariel B, Geiselmann, Johannes, de Jong, Hidde
Publicado no Mol Syst Biol (2015)

SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools

Por Chaouiya, Claudine, Bérenguier, Duncan, Keating, Sarah M, Naldi, Aurélien, van Iersel, Martijn P, Rodriguez, Nicolas, Dräger, Andreas, Büchel, Finja, Cokelaer, Thomas, Kowal, Bryan, Wicks, Benjamin, Gonçalves, Emanuel, Dorier, Julien, Page, Michel, Monteiro, Pedro T, von Kamp, Axel, Xenarios, Ioannis, de Jong, Hidde, Hucka, Michael, Klamt, Steffen, Thieffry, Denis, Le Novère, Nicolas, Saez-Rodriguez, Julio, Helikar, Tomáš
Publicado em 2013