Denis Thieffry

Fabien Corblin, Eric Fanchon, Laurent Trilling, Claudine Chaouiya, Denis Thieffry: Automatic Inference of Regulatory and Dynamical Properties from Incomplete Gene Interaction and Expression Data. IPCAT 2012: 25-30

Morgane Thomas-Chollier, Matthieu Defrance, Alejandra Medina-Rivera, Olivier Sand, Carl Herrmann, Denis Thieffry, Jacques van Helden: RSAT 2011: regulatory sequence analysis tools. Nucleic Acids Research 39(Web-Server-Issue): 86-91 (2011)

Claudine Chaouiya, Aurélien Naldi, Elisabeth Remy, Denis Thieffry: Petri net representation of multi-valued logical regulatory graphs. Natural Computing 10(2): 727-750 (2011)

Aurélien Naldi, Elisabeth Remy, Denis Thieffry, Claudine Chaouiya: Dynamically consistent reduction of logical regulatory graphs. Theor. Comput. Sci. 412(21): 2207-2218 (2011)

Denis Thieffry: Logical modelling of haematopoietic cell fate reprogramming. CMSB 2011: 7

Laurence Calzone, Laurent Tournier, Simon Fourquet, Denis Thieffry, Boris Zhivotovsky, Emmanuel Barillot, Andrei Zinovyev: Mathematical Modelling of Cell-Fate Decision in Response to Death Receptor Engagement. PLoS Computational Biology 6(3) (2010)

Aurélien Naldi, Jorge Carneiro, Claudine Chaouiya, Denis Thieffry: Diversity and Plasticity of Th Cell Types Predicted from Regulatory Network Modelling. PLoS Computational Biology 6(9) (2010)

Claudine Chaouiya, Aurélien Naldi, Elisabeth Remy, Denis Thieffry: Reduction of Logical Models of Regulatory Networks Yields Insight into Dynamical properties. CCA 2010: 524-529

Touati Benoukraf, Pierre Cauchy, Romain Fenouil, Adrien Jeanniard, Frederic Koch, Sébastien Jaeger, Denis Thieffry, Jean Imbert, Jean-Christophe Andrau, Salvatore Spicuglia, Pierre Ferrier: CoCAS: a ChIP-on-chip analysis suite. Bioinformatics 25(7): 954-955 (2009)

Aurélien Naldi, D. Berenguier, Adrien Fauré, F. Lopez, Denis Thieffry, Claudine Chaouiya: Logical modelling of regulatory networks with GINsim 2.3. Biosystems 97(2): 134-139 (2009)

Aurélien Naldi, Elisabeth Remy, Denis Thieffry, Claudine Chaouiya: A Reduction of Logical Regulatory Graphs Preserving Essential Dynamical Properties. CMSB 2009: 266-280

Claudine Chaouiya, Elisabeth Remy, Denis Thieffry: Petri net modelling of biological regulatory networks. J. Discrete Algorithms 6(2): 165-177 (2008)

Aitor Gonzalez, Claudine Chaouiya, Denis Thieffry: Logical modelling of the role of the Hh pathway in the patterning of the Drosophila wing disc. ECCB 2008: 234-240

Denis Thieffry: Dynamical roles of biological regulatory circuits. Briefings in Bioinformatics 8(4): 220-225 (2007)

Adrien Fauré, Claudine Chaouiya, Andrea Ciliberto, Denis Thieffry: Logical modelling and analysis of the budding yeast cell cycle. BMC Bioinformatics 8(S-8) (2007)

Aurélien Naldi, Denis Thieffry, Claudine Chaouiya: Decision Diagrams for the Representation and Analysis of Logical Models of Genetic Networks. CMSB 2007: 233-247

Elisabeth Remy, Paul Ruet, Luis Eduardo Mendoza, Denis Thieffry, Claudine Chaouiya: From Logical Regulatory Graphs to Standard Petri Nets: Dynamical Roles and Functionality of Feedback Circuits. : 56-72 (2006)

Claudine Chaouiya, Elisabeth Remy, Denis Thieffry: Qualitative Petri Net Modelling of Genetic Networks. : 95-112 (2006)

Adrien Fauré, Aurélien Naldi, Claudine Chaouiya, Denis Thieffry: Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle. ISMB (Supplement of Bioinformatics) 2006: 124-131

E. Simão, Elisabeth Remy, Denis Thieffry, Claudine Chaouiya: Qualitative modelling of regulated metabolic pathways: application to the tryptophan biosynthesis in E.Coli. ECCB/JBI 2005: 196

Claudine Chaouiya, Elisabeth Remy, Paul Ruet, Denis Thieffry: Qualitative Modelling of Genetic Networks: From Logical Regulatory Graphs to Standard Petri Nets. ICATPN 2004: 137-156

Elisabeth Remy, Brigitte Mossé, Claudine Chaouiya, Denis Thieffry: A description of dynamical graphs associated to elementary regulatory circuits. ECCB 2003: 172-178

Claudine Chaouiya, Elisabeth Remy, Brigitte Mossé, Denis Thieffry: Qualitative Analysis of Regulatory Graphs: A Computational Tool Based on a Discrete Formal Framework. POSTA 2003: 119-126

L. Mendoza, Denis Thieffry, Elena R. Alvarez-Buylla: Genetic control of flower morphogenesis in Arabidopsis thaliana: a logical analysis. Bioinformatics 15(7): 593-606 (1999)

Denis Thieffry, Heladia Salgado, Araceli M. Huerta, Julio Collado-Vides: Prediction of transcriptional regulatory sites in the complete genome sequence of Escherichia coli K-12. Bioinformatics 14(5): 391-400 (1998)

Araceli M. Huerta, Heladia Salgado, Denis Thieffry, Julio Collado-Vides: RegulonDB: a database on transcriptional regulation in Escherichia coli. Nucleic Acids Research 26(1): 55-59 (1998)

David A. Rosenblueth, Denis Thieffry, Araceli M. Huerta, Heladia Salgado, Julio Collado-Vides: Syntactic recognition of regulatory regions in Escherichia coli. Computer Applications in the Biosciences 12(5): 415-422 (1996)