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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
Waterman H, Levkowitz G, Alroy I, Yarden Y.  1999.  The RING finger of c-Cbl mediates desensitization of the epidermal growth factor receptor.. The Journal of biological chemistry. 274(32):22151-4. Abstract
Tanji T, Ip TY.  2005.  Regulators of the Toll and Imd pathways in the Drosophila innate immune response.. Trends in immunology. 26(4):193-8. Abstract
Sun H, Towb P, Chiem DN, Foster BA, Wasserman SA.  2004.  Regulated assembly of the Toll signaling complex drives Drosophila dorsoventral patterning.. The EMBO journal. 23(1):100-10. Abstract
Micchelli CA, The I, Selva E, Mogila V, Perrimon N.  2002.  Rasp, a putative transmembrane acyltransferase, is required for Hedgehog signaling.. Development (Cambridge, England). 129(4):843-51. Abstract
Q
Simão E, REMY E, Thieffry D, Chaouiya C.  2005.  Qualitative modelling of regulated metabolic pathways: application to the tryptophan biosynthesis in E.coli.. Bioinformatics (Oxford, England). 21 Suppl 2:ii190-6. Abstract
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.
Mbodj A, Gustafson HE, Ciglar L, Junion G, GONZALEZ A, GIRARDOT C, PERRIN L, Furlong EEM, Thieffry D.  2016.  Qualitative Dynamical Modelling Can Formally Explain Mesoderm Specification and Predict Novel Developmental Phenotypes. PLoS Comput Biol. 12:1-17. 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.
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Sánchez L, Chaouiya C.  2016.  Primary sex determination of placental mammals: a modelling study uncovers dynamical developmental constraints in the formation of Sertoli and granulosa cells.. BMC systems biology. 10(1):37. Abstract
Letort G, Montagud A, Stoll G, Heiland R, Calzone EBAZL, Macklin P.  2018.  PhysiBoSS: a multi-scale agent-based modelling framework integrating physical dimension and cell signalling. Bioinformatics. 35(7):1188–1196.
Chaouiya C, REMY E, Thieffry D.  2008.  Petri net modelling of biological regulatory networks. Journal of Discrete Algorithms. 6(2):165-177.
Béal J, Pantolini L, Noël V, Barillot E, Calzone L.  2021.  Personalized logical models to investigate cancer response to BRAF treatments in melanomas and colorectal cancers. PLoS Comput. Biol..
Sims D, Duchek P, Baum B.  2009.  PDGF/VEGF signaling controls cell size in Drosophila.. Genome biology. 10(2):R20. Abstract
Brückner K, Kockel L, Duchek P, Luque CM, Rørth P, Perrimon N.  2004.  The PDGF/VEGF receptor controls blood cell survival in Drosophila.. Developmental cell. 7(1):73-84. Abstract
Denef N, Schüpbach T.  2003.  Patterning: JAK-STAT signalling in the Drosophila follicular epithelium.. Current biology : CB. 13(10):R388-90. Abstract
Montagud A, Béal J, Tobalina L, Traynard P, Subramanian V, Szalai B, Alföldi R, Puskás L, Valencia A, Barillot E et al..  Submitted.  Patient-specific Boolean models of signaling networks guide personalized treatments.
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Tapanes-Castillo A, Baylies MK.  2004.  Notch signaling patterns Drosophila mesodermal segments by regulating the bHLH transcription factor twist.. Development (Cambridge, England). 131(10):2359-72. Abstract
Wilson CW, Chuang P-T.  2006.  New "hogs" in Hedgehog transport and signal reception.. Cell. 125(3):435-8. Abstract
Zhang R, Shah MV, Yang J, Nyland SB, Liu X, Yun JK, Albert R, Loughran TP.  2008.  Network model of survival signaling in large granular lymphocyte leukemia.. Proceedings of the National Academy of Sciences of the United States of America. 105(42):16308-13. Abstract
Weinstein N, Mendoza L.  2013.  A network model for the specification of vulval precursor cells and cell fusion control in Caenorhabditis elegans.. Frontiers in genetics. 4:112. Abstract
MENDOZA L.  2006.  A network model for the control of the differentiation process in Th cells. Biosystems. 84(2):101-114.
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Bate M, Rushton E.  1993.  Myogenesis and muscle patterning in Drosophila.. Comptes rendus de l'Académie des sciences. Série III, Sciences de la vie. 316(9):1047-61. Abstract
Fuerstenberg S, Giniger E.  1998.  Multiple roles for notch in Drosophila myogenesis.. Developmental biology. 201(1):66-77. Abstract
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


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