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A Multi-Site Constraint Programming Model of Alternative Splicing Regulation

 Damien Eveillard , Delphine Ropers , Hidde de Jong , Christiane Branlant , Alexander Bockmayr
[Research Report] RR-4830, INRIA. 2003
Rapport inria-00071756v1
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Genomewide Stabilization of mRNA during a "Feast-to- Famine" Growth Transition in Escherichia coli Downloaded from

 Manon Morin , Brice Enjalbert , Delphine Ropers , Laurence Girbal , Muriel Cocaign-Bousquet
MSphere, 2020, 5 (3), ⟨10.1128/mSphere.00276-20⟩
Article dans une revue hal-02967494v1

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

 Guillaume Baptist , Corinne Pinel , Caroline Ranquet , Jérôme Izard , Delphine Ropers , et al.
Nucleic Acids Research, 2013, 41 (17), pp.e164. ⟨10.1093/nar/gkt655⟩
Article dans une revue hal-00857345v1

Computational modeling and analysis of the yeast FLR1 regulatory network in mancozeb-challenged cells

 Pedro T. Monteiro , Paulo J. Dias , Delphine Ropers , Arlindo L. Oliveira , Isabel Sà-Correia , et al.
11th International Conference on Systems Biology, ICSB 2010, 2010, Edinburgh, United Kingdom. pp.105
Communication dans un congrès hal-00793029v1
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Acetate metabolism and the inhibition of bacterial growth by acetate

 Stéphane Pinhal , Delphine Ropers , Johannes Geiselmann , Hidde de Jong
Journal of Bacteriology, 2019, 201 (13), pp.147 - 166. ⟨10.1128/JB.00147-19⟩
Article dans une revue hal-02195459v1

New actors in regulation of HIV-1 mRNA production

 Georges Khoury , Lilia Ayadi , Jean-Michel Saliou , Sarah Sanglier , Delphine Ropers , et al.
Retrovirology, 2009, 6, pp.46
Article dans une revue hal-00793013v1
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Symbolic Reachability Analysis of Genetic Regulatory Networks using Qualitative Abstractions

 Grégory Batt , Delphine Ropers , Hidde de Jong , Michel Page , Johannes Geiselmann
[Research Report] RR-6136, INRIA. 2007
Rapport inria-00133991v2
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Symbolic Reachability Analysis of Genetic Regulatory Networks using Qualitative Abstraction

 Grégory Batt , Hidde de Jong , Johannes Geiselmann , Michel Page , Delphine Ropers , et al.
[Research Report] RR-5362, INRIA. 2004, pp.37
Rapport inria-00070641v1
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Temporal Logic Patterns for Querying Dynamic Models of Cellular Interaction Networks

 Pedro T. Monteiro , Delphine Ropers , Radu Mateescu , Ana T. Freitas , Hidde de Jong
Bioinformatics, 2008, ECCB 2008 CONFERENCE PROCEEDINGS 22-26 SEPTEMBER 2008, CAGLIARI, ITALY, 24 (16), pp.i227-i233. ⟨10.1093/bioinformatics/btn275⟩
Article dans une revue inria-00357805v1
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Etude expérimentale du rôle des protéines SR dans la régulation de l'épissage de l'ARN du virus HIV-1, responsable de l'immunodéficience humaine, et modélisation mathématique de ces régulations

 Delphine Ropers
Biochimie, Biologie Moléculaire. Université Henri Poincaré - Nancy 1, 2003. Français. ⟨NNT : 2003NAN10177⟩
Thèse tel-01748098v1

The carbon assimilation network in Escherichia coli is densely connected and largely sign-determined by directions of metabolic fluxes

 Valentina Baldazzi , Delphine Ropers , Yves Markowicz , Daniel Kahn , Hans Geiselmann , et al.
Actes des Journées Ouvertes Biologie, Informatique et Mathématiques (JOBIM 2010), 2010, Montpellier, France. pp.11-12
Communication dans un congrès hal-00793021v1

Mass spectrometry-based workflow for accurate quantification of E. coli enzymes: how proteomics can play a key role in metabolic engineering.

 Mathieu Trauchessec , Michel Jaquinod , Aline Bonvalot , Virginie Brun , Christophe Bruley , et al.
Molecular and Cellular Proteomics, 2014, 13 (4), pp.954-968. ⟨10.1074/mcp.M113.032672⟩
Article dans une revue hal-00947196v1

A coupled transcription-translation mathematical model of RNA polymerase

 Ismail Belgacem , Edith Grac , Delphine Ropers , Jean-Luc Gouzé
21st International Symposium on Mathematical Theory of Networks and Systems, Jul 2014, Groningen, Netherlands
Communication dans un congrès hal-00966559v1

Multiscale modeling of alternative splicing regulation

 Damien Eveillard , Delphine Ropers , Hidde de Jong , Christiane Branlant , Alexander Bockmayr
International Workshop on Computational Methods in Systems Biology - CMSB'03, 2003, Rovereto, Italie, pp.75-87
Communication dans un congrès inria-00099792v1

An ensemble of mathematical models showing diauxic growth behaviour

 Andreas Kremling , Johannes Geiselmann , Delphine Ropers , Hidde de Jong
BMC Systems Biology, 2018, 12 (1), pp.1-16. ⟨10.1186/s12918-018-0604-8⟩
Article dans une revue hal-01893978v1
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The Csr System Regulates Escherichia coli Fitness by Controlling Glycogen Accumulation and Energy Levels

 Manon Morin , Delphine Ropers , Eugenio Cinquemani , Jean-Charles Portais , Brice Enjalbert , et al.
mBio, 2017, 8 (5), pp.1-14. ⟨10.1128/mBio.01628-17⟩
Article dans une revue hal-01672038v1

Multiomics Study of Bacterial Growth Arrest in a Synthetic Biology Application

 Delphine Ropers , Yohann Couté , Laëtitia Faure , Sabrina Ferré , Delphine Labourdette , et al.
ACS Synthetic Biology, 2021, 10 (11), pp.2910-2926. ⟨10.1021/acssynbio.1c00115⟩
Article dans une revue hal-03516727v1

A dynamic network analysis of the physiological state of foodborne pathogens: application to Escherichia coli during osmotic stress and comparison with Salmonella Typhimurium

 Aline Métris , Susan George , Delphine Ropers , Jozsef Baranyi
9th International Conference on Predictive Modelling in Food, 2015, Rio de Janeiro, Brazil
Communication dans un congrès hal-01251307v1

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

 Valentin Zulkower , Michel Page , Delphine Ropers , Johannes Geiselmann , Hidde de Jong
Bioinformatics, 2015, 31 (12), pp.i71-i79. ⟨10.1093/bioinformatics/btv246⟩
Article dans une revue hal-01217800v1

De la complexité génomique à la diversité protéique : Analyse par modélisation et expériences de la régulation de l'épissage alternatif de l'ARN du virus VIH-1

 Delphine Ropers
Editions Universitaires Européennes, pp.288, 2011
Ouvrages hal-00793035v1

WellReader: a MATLAB program for the analysis of fluorescence and luminescence reporter gene data.

 Frédéric Boyer , Bruno Besson , Guillaume Baptist , Jérôme Izard , Corinne Pinel , et al.
Bioinformatics, 2010, 26 (9), pp.1262-3. ⟨10.1093/bioinformatics/btq016⟩
Article dans une revue hal-00562237v1

Model simplification and process analysis of biological models

 Stefano Casagranda , Delphine Ropers , Jean-Luc Gouzé
The 5th International Symposium on Positive Systems (POSTA), Sep 2016, Rome, Italy
Communication dans un congrès hal-01412049v1
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Reduction and stability analysis of a transcription-translation model of RNA polymerase

 Ismail Belgacem , Stefano Casagranda , Edith Grac , Delphine Ropers , Jean-Luc Gouzé
Bulletin of Mathematical Biology, 2018, 80 (2), pp.294-318. ⟨10.1007/s11538-017-0372-4⟩
Article dans une revue hal-01655367v1
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Principal process analysis of biological models

 Stefano Casagranda , Suzanne Touzeau , Delphine Ropers , Jean-Luc Gouzé
BMC Systems Biology, 2018, 12, pp.68. ⟨10.1186/s12918-018-0586-6⟩
Article dans une revue hal-01818033v1
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Model reduction and process analysis of biological models

 Stefano Casagranda , Delphine Ropers , Jean-Luc Gouzé
2015 23th Mediterranean Conference on Control and Automation (MED), Jun 2015, Torremolinos, Spain. ⟨10.1109/MED.2015.7158908⟩
Communication dans un congrès hal-01239356v1

Stability analysis of a reduced transcription-translation model of RNA polymerase

 Ismail Belgacem , Edith Grac , Delphine Ropers , Jean-Luc Gouzé
Proceedings of the 53rd IEEE Conference on Decision and Control, Dec 2014, Los Angeles, CA, United States
Communication dans un congrès hal-01091674v1

Role of RNA structure and protein factors in the control of HIV-1 splicing

 Jean-Michel Saliou , Cyril Bourgeois , L. Ayadi-Ben Mena , Delphine Ropers , S. Jacquenet , et al.
Frontiers in Bioscience-Landmark, 2009, 14, pp.2714-2729
Article dans une revue hal-00793011v1

Genetic Network Analyzer: A Tool for the Qualitative Modeling and Simulation of Bacterial Regulatory Networks

 Grégory Batt , Bruno Besson , Pierre-Emmanuel Ciron , Hidde de Jong , Estelle Dumas , et al.
Jacques van Helden, Ariane Toussaint, Denis Thieffry. Bacterial Molecular Networks Methods and Protocols, 804, Springer, pp.439-462, 2012, Methods in Molecular Biology,, 978-1-61779-361-5. ⟨10.1007/978-1-61779-361-5_22⟩
Chapitre d'ouvrage hal-00762122v1
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KOALAB: A new method for regulatory motif search. Illustration on alternative splicing regulation in HIV-1

 Damien Eveillard , Abdelhalim Larhlimi , Delphine Ropers , Stéphanie Billaut , Sandrine Peyrefitte
5èmes Journées Ouvertes Biologie Informatique Mathématiques - JOBIM 2004, Jun 2004, Montréal, Canada
Communication dans un congrès inria-00000915v1

Data for the qualitative modeling of the osmotic stress response to NaCl in Escherichia coli

 Delphine Ropers , Aline Métris
Data in Brief, 2016, 9, pp.606-612. ⟨10.1016/j.dib.2016.09.028⟩
Article dans une revue hal-01417966v1
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