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O'Neill EM, Rebay I, Tjian R, Rubin GM.  1994.  The activities of two Ets-related transcription factors required for Drosophila eye development are modulated by the Ras/MAPK pathway.. Cell. 78(1):137-47. Abstract
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Nuñez-Reza KJ, Naldi A, Sánchez-Jiménez A, Leon-Apodaca AV, Santana A, Thomas-Chollier M, Thieffry D, Medina-Rivera A.  2021.  Logical modeling of in vitro differentiation of human monocytes into dendritic cells unravels novel transcriptional regulatory interactions.
Novák B, Tyson JJ.  2004.  A model for restriction point control of the mammalian cell cycle. Journal of Theoretical Biology. 230(4):563-579.
Niarakis A, Bounab Y, Grieco L, Roncagalli R, Hesse A-M, Garin J, Malissen B, Daëron M, Thieffry D.  2014.  Computational modeling of the main signaling pathways involved in mast cell activation. Current topics in microbiology and immunology. 382:69-93. Abstract
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.
Naldi A, Remy E, Thieffry D, Chaouiya C.  2011.  Dynamically consistent reduction of logical regulatory graphs. Theoretical Computer Science. 412(21):2207-2218.
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.
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Morisato D, Anderson KV.  1994.  The spätzle gene encodes a component of the extracellular signaling pathway establishing the dorsal-ventral pattern of the Drosophila embryo.. Cell. 76(4):677-88. 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.
Mombach J, Bugs C, Chaouiya C.  2014.  Modelling the onset of senescence at the G1/S cell cycle checkpoint. BMC Genomics. 15:S7.
Michelson AM.  2003.  Running interference for hedgehog signaling.. Science's STKE : signal transduction knowledge environment. 2003(192):PE30. 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
MENDOZA L, Thieffry D, Alvarez-Buylla ER.  1999.  Genetic control of flower morphogenesis in Arabidopsis thaliana: a logical analysis. Bioinformatics. 15(7):593-606.
MENDOZA L.  2006.  A network model for the control of the differentiation process in Th cells. Biosystems. 84(2):101-114.
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
Mbodj A, Junion G, Brun C, Furlong EEM, Thieffry D.  2013.  Logical modelling of Drosophila signalling pathways.. Molecular bioSystems. 9(9):2248-58. Abstract
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Luo H, Dearolf CR.  2001.  The JAK/STAT pathway and Drosophila development.. BioEssays : news and reviews in molecular, cellular and developmental biology. 23(12):1138-47. Abstract
Lum L, Yao S, Mozer B, Rovescalli A, Von Kessler D, Nirenberg M, Beachy PA.  2003.  Identification of Hedgehog pathway components by RNAi in Drosophila cultured cells.. Science (New York, N.Y.). 299(5615):2039-45. Abstract
Ligoxygakis P, Pelte N, Ji C, Leclerc V, Duvic B, Belvin M, Jiang H, Hoffmann JA, Reichhart J-M.  2002.  A serpin mutant links Toll activation to melanization in the host defence of Drosophila.. The EMBO journal. 21(23):6330-7. Abstract
Ligoxygakis P, Pelte N, Hoffmann JA, Reichhart J-M.  2002.  Activation of Drosophila Toll during fungal infection by a blood serine protease.. Science (New York, N.Y.). 297(5578):114-6. Abstract
Levkowitz G, Waterman H, Ettenberg SA, Katz M, Tsygankov AY, Alroy I, Lavi S, Iwai K, Reiss Y, Ciechanover A et al..  1999.  Ubiquitin ligase activity and tyrosine phosphorylation underlie suppression of growth factor signaling by c-Cbl/Sli-1.. Molecular cell. 4(6):1029-40. 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.
Lee JD, Treisman JE.  2001.  The role of Wingless signaling in establishing the anteroposterior and dorsoventral axes of the eye disc.. Development (Cambridge, England). 128(9):1519-29. Abstract
Lee JJ, Ekker SC, von Kessler DP, Porter JA, Sun BI, Beachy PA.  1994.  Autoproteolysis in hedgehog protein biogenesis.. Science (New York, N.Y.). 266(5190):1528-37. Abstract
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Kouhara H, Hadari YR, Spivak-Kroizman T, Schilling J, Bar-Sagi D, Lax I, Schlessinger J.  1997.  A lipid-anchored Grb2-binding protein that links FGF-receptor activation to the Ras/MAPK signaling pathway.. Cell. 89(5):693-702. Abstract


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