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F
Fauré A, Vreede BMI, Sucena E, Chaouiya C.  2014.  A discrete model of Drosophila eggshell patterning reveals cell-autonomous and juxtacrine effects. PLoS Comput Biol. 10(3):e1003527.
Fauré A, Thieffry D.  2009.  Logical modelling of cell cycle control in eukaryotes: a comparative study. Molecular BioSystems. 5(12):1569.
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
E
Enciso J, Mayani H, Mendoza L, Pelayo R.  Submitted.  Modeling the pro-inflammatory tumor microenvironment in acute lymphoblastic leukemia predicts a breakdown of hematopoieticmesenchymal communication networks..
Enciso J, Mayani H, Mendoza L, Pelayo R.  2016.  Modeling the pro-inflammatory tumor microenvironment in acute lymphoblastic leukemia predicts a breakdown of hematopoietic-mesenchymal communication networks. Frontiers in Physiology. 7
Eldar A, Dorfman R, Weiss D, Ashe H, Shilo B-Z, Barkai N.  2002.  Robustness of the BMP morphogen gradient in Drosophila embryonic patterning.. Nature. 419(6904):304-8. Abstract
D
Duchek P, Somogyi K, Jékely G, Beccari S, Rørth P.  2001.  Guidance of cell migration by the Drosophila PDGF/VEGF receptor.. Cell. 107(1):17-26. Abstract
Desterke C, Martinaud C, Ruzehaji N, Le Bousse-Kerdilès M-C.  2015.  Inflammation as a Keystone of Bone Marrow Stroma Alterations in Primary Myelofibrosis.. Mediators of inflammation. 2015:415024. Abstract
Denef N, Schüpbach T.  2003.  Patterning: JAK-STAT signalling in the Drosophila follicular epithelium.. Current biology : CB. 13(10):R388-90. Abstract
Davidich MI, Bornholdt S.  2008.  Boolean network model predicts cell cycle sequence of fission yeast. PloS one. 3(2):e1672. Abstract
C
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..
Coolen M, Thieffry D, Drivenes Ø, Becker TS, Bally-Cuif L.  2012.  miR-9 controls the timing of neurogenesis through the direct inhibition of antagonistic factors.. Developmental cell. 22(5):1052-64. Abstract
Collombet S, van Oevelen C, Sardina Ortega JL, Abou-Jaoudé W, Di Stefano B, Thomas-Chollier M, Graf T, Thieffry D.  2017.  Logical modeling of lymphoid and myeloid cell specification and transdifferentiation.. Proceedings of the National Academy of Sciences of the United States of America. 114(23):5792-5799. Abstract
Cohen DPA, Martignetti L, Robine S, Barillot E, Zinovyev A, Calzone L.  2015.  Mathematical Modelling of Molecular Pathways Enabling Tumour Cell Invasion and Migration.. PLoS computational biology. 11(11):e1004571. Abstract
Ciliberto A, Novak B, Tyson JJ.  2003.  Mathematical model of the morphogenesis checkpoint in budding yeast.. The Journal of cell biology. 163(6):1243-54. Abstract
Ciglar L, Furlong EEM.  2009.  Conservation and divergence in developmental networks: a view from Drosophila myogenesis.. Current opinion in cell biology. 21(6):754-60. Abstract
Chen Y, Struhl G.  1996.  Dual roles for patched in sequestering and transducing Hedgehog.. Cell. 87(3):553-63. Abstract
Chen KC, Calzone L, Csikasz-Nagy A, Cross FR, Novak B, Tyson JJ.  2004.  Integrative analysis of cell cycle control in budding yeast.. Molecular biology of the cell. 15(8):3841-62. Abstract
Checcoli A, Pol JG, Naldi A, Noel V, Barillot E, Kroemer G, Thieffry D, Calzone L, Stoll G.  2020.  Dynamical Boolean Modeling of Immunogenic Cell Death.
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
Chaouiya C, Remy E, Mossé B, Thieffry D.  2003.  Qualitative Analysis of Regulatory Graphs: A Computational Tool Based on a Discrete Formal Framework. Positive Systems. 294:830-832.
Chaouiya C.  2011.  Computational BiologyModeling in Systems BiologyA Modular, Qualitative Modeling of Regulatory Networks Using Petri Nets. 16:253-279.
Chaouiya C, REMY E, Ruet P, Thieffry D.  2004.  Qualitative Modelling of Genetic Networks: From Logical Regulatory Graphs to Standard Petri Nets. 25th International Conference on Application and Theory of Petri Nets. 3099:137-156.
Chaouiya C, REMY E, Thieffry D.  2008.  Petri net modelling of biological regulatory networks. Journal of Discrete Algorithms. 6(2):165-177.
Chamoun Z, Mann RK, Nellen D, von Kessler DP, Bellotto M, Beachy PA, Basler K.  2001.  Skinny hedgehog, an acyltransferase required for palmitoylation and activity of the hedgehog signal.. Science (New York, N.Y.). 293(5537):2080-4. Abstract


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