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Book Chapter

Naldi A, Thieffry D, Chaouiya C. 2007. Decision Diagrams for the Representation and Analysis of Logical Models of Genetic Networks. Computational Methods in Systems Biology. 4695:233-247.

Chaouiya C, Naldi A, Thieffry D. 2012. Logical Modelling of Gene Regulatory Networks with GINsim.. Methods in molecular biology (Clifton, N.J.). 804:463-79. Abstract

Journal Article

Hernadez C, Naldi A, Thomas-Chollier M, Thieffry D. Submitted. Computational verification of large logical models - application to the prediction of T cell response to checkpoint inhibitors.

Sanchez-Villanueva JA, Rodriguez-Jorge O, Ramirez-Pliego O, Rosas-Salgado G, Abou-Jaoudé W, Hernandez C, Naldi A, Thieffry D, Santana MA. 2019. Contribution of ROS and metabolic status to neonatal and adult CD8+ T cell activation. PLoS One.

Naldi A, Carneiro J, Chaouiya C, Thieffry D. 2010. Diversity and Plasticity of Th Cell Types Predicted from Regulatory Network Modelling. PLoS Computational Biology. 6(9):e1000912.

Fauré A, Naldi A, Chaouiya C, Thieffry D. 2006. Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle.. Bioinformatics (Oxford, England). 22(14):e124-31. Abstract

Naldi A, Remy E, Thieffry D, Chaouiya C. 2011. Dynamically consistent reduction of logical regulatory graphs. Theoretical Computer Science. 412(21):2207-2218.

Corral-Jara KF, Chauvin C, Abou-Joudé W, Grandclaudon M, Naldi A, Soumelis V, Thieffry D. Submitted. Interplay between Smad2 and STAT5A is a critical determinant of IL- 17A/IL-17F differential expression..

Fauré A, Naldi A, Lopez F, Chaouiya C, Ciliberto A, Thieffry D. 2009. Modular logical modelling of the budding yeast cell cycle.. Molecular bioSystems. 5(12):1787-96. Abstract