| Validation of qualitative models of genetic regulatory networks by model checking: analysis of the nutritional stress response in Escherichia coli G Batt, D Ropers, H De Jong, J Geiselmann, R Mateescu, M Page, ... Bioinformatics 21 (suppl_1), i19-i28, 2005 | 248 | 2005 |
| Acetate metabolism and the inhibition of bacterial growth by acetate S Pinhal, D Ropers, J Geiselmann, H De Jong Journal of bacteriology 201 (13), 10.1128/jb. 00147-19, 2019 | 232 | 2019 |
| Qualitative simulation of the carbon starvation response in Escherichia coli D Ropers, H De Jong, M Page, D Schneider, J Geiselmann Biosystems 84 (2), 124-152, 2006 | 183 | 2006 |
| Shared control of gene expression in bacteria by transcription factors and global physiology of the cell S Berthoumieux, H De Jong, G Baptist, C Pinel, C Ranquet, D Ropers, ... Molecular systems biology 9 (1), 634, 2013 | 179 | 2013 |
| Understanding carbon catabolite repression in Escherichia coli using quantitative models A Kremling, J Geiselmann, D Ropers, H de Jong Trends in microbiology 23 (2), 99-109, 2015 | 131 | 2015 |
| Temporal logic patterns for querying dynamic models of cellular interaction networks PT Monteiro, D Ropers, R Mateescu, AT Freitas, H De Jong Bioinformatics 24 (16), i227-i233, 2008 | 118 | 2008 |
| Conserved stem–loop structures in the HIV-1 RNA region containing the A3 3′ splice site and its cis-regulatory element: possible involvement in RNA splicing S Jacquenet, D Ropers, PS Bilodeau, L Damier, A Mougin, CM Stoltzfus, ... Nucleic acids research 29 (2), 464-478, 2001 | 104 | 2001 |
| A synthetic growth switch based on controlled expression of RNA polymerase J Izard, CDC Gomez Balderas, D Ropers, S Lacour, X Song, Y Yang, ... Molecular systems biology 11 (11), 840, 2015 | 103 | 2015 |
| Differential effects of the SR proteins 9G8, SC35, ASF/SF2, and SRp40 on the utilization of the A1 to A5 splicing sites of HIV-1 RNA D Ropers, L Ayadi, R Gattoni, S Jacquenet, L Damier, C Branlant, ... Journal of Biological Chemistry 279 (29), 29963-29973, 2004 | 101 | 2004 |
| Experimental and computational validation of models of fluorescent and luminescent reporter genes in bacteria H De Jong, C Ranquet, D Ropers, C Pinel, J Geiselmann BMC systems biology 4, 1-17, 2010 | 96 | 2010 |
| A declarative constraint-based method for analyzing discrete genetic regulatory networks F Corblin, S Tripodi, E Fanchon, D Ropers, L Trilling Biosystems 98 (2), 91-104, 2009 | 70 | 2009 |
| Biochemical and NMR study on the competition between proteins SC35, SRp40, and heterogeneous nuclear ribonucleoprotein A1 at the HIV-1 Tat exon 2 splicing site H Hallay, N Locker, L Ayadi, D Ropers, E Guittet, C Branlant Journal of Biological Chemistry 281 (48), 37159-37174, 2006 | 68 | 2006 |
| Qualitative Analysis and Verification of Hybrid Models of Genetic Regulatory Networks: Nutritional Stress Response in Escherichia coli G Batt, D Ropers, H De Jong, J Geiselmann, M Page, D Schneider International Workshop on Hybrid Systems: Computation and Control, 134-150, 2005 | 66 | 2005 |
| Mathematical modelling of microbes: metabolism, gene expression and growth H De Jong, S Casagranda, N Giordano, E Cinquemani, D Ropers, ... Journal of The Royal Society Interface 14 (136), 20170502, 2017 | 62 | 2017 |
| The Carbon Assimilation Network in Escherichia coli Is Densely Connected and Largely Sign-Determined by Directions of Metabolic Fluxes V Baldazzi, D Ropers, Y Markowicz, D Kahn, J Geiselmann, H De Jong PLoS computational biology 6 (6), e1000812, 2010 | 61 | 2010 |
| The post‐transcriptional regulatory system CSR controls the balance of metabolic pools in upper glycolysis of Escherichia coli M Morin, D Ropers, F Letisse, S Laguerre, JC Portais, ... Molecular Microbiology 100 (4), 686-700, 2016 | 49 | 2016 |
| Genetic network analyzer: a tool for the qualitative modeling and simulation of bacterial regulatory networks G Batt, B Besson, PE Ciron, H de Jong, E Dumas, J Geiselmann, R Monte, ... Bacterial Molecular Networks: Methods and Protocols, 439-462, 2012 | 45 | 2012 |
| Role of RNA structure and protein factors in the control of HIV-1 splicing JM Saliou, CF Bourgeois, L Ayadi-Ben Mena, D Ropers, S Jacquenet, ... Front Biosci (Landmark Ed) 14, 2714-2729, 2009 | 42 | 2009 |
| Model reduction using piecewise-linear approximations preserves dynamic properties of the carbon starvation response in Escherichia coli D Ropers, V Baldazzi, H De Jong IEEE/ACM Transactions on Computational Biology and Bioinformatics 8 (1), 166-181, 2009 | 36 | 2009 |
| Analysis and verification of qualitative models of genetic regulatory networks: A model-checking approach G Batt, D Ropers, H De Jong, J Geiselmann, R Mateescu, M Page, ... IJCAI, 370-375, 2005 | 36 | 2005 |
