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Book Chapter

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.

Journal Article

Kondratova M, Barillot E, Zinovyev A, Calzone L. 2020. Modelling of Immune Checkpoint Network Explains Synergistic Effects of Combined Immune Checkpoint Inhibitor Therapy and the Impact of Cytokines in Patient Response . Cancers. 12(12)

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

Brooks A, Dou W, Yang X, Brosnan T, Pargett M, Raftery LA, Umulis DM. 2012. BMP signaling in wing development: A critical perspective on quantitative image analysis.. FEBS letters. 586(14):1942-52. Abstract

Davidich MI, Bornholdt S. 2008. Boolean network model predicts cell cycle sequence of fission yeast. PloS one. 3(2):e1672. Abstract

Porter JA, Young KE, Beachy PA. 1996. Cholesterol modification of hedgehog signaling proteins in animal development.. Science (New York, N.Y.). 274(5285):255-9. Abstract

Verlingue L, Dugourd A, Stoll G, Barillot E, Calzone L, Londoño-Vallejo A. 2016. A comprehensive approach to the molecular determinants of lifespan using a Boolean model of geroconversion. Aging Cell. :n/a–n/a.

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

Pai LM, Barcelo G, Schüpbach T. 2000. D-cbl, a negative regulator of the Egfr pathway, is required for dorsoventral patterning in Drosophila oogenesis.. Cell. 103(1):51-61. Abstract

Flobak Å, Baudot A, Remy E, Thommesen L, Thieffry D, Kuiper M, Lægreid A. 2015. Discovery of Drug Synergies in Gastric Cancer Cells Predicted by Logical Modeling.. PLoS computational biology. 11(8):e1004426. Abstract

Gobert V, Gottar M, Matskevich AA, Rutschmann S, Royet J, Belvin M, Hoffmann JA, Ferrandon D. 2003. Dual activation of the Drosophila toll pathway by two pattern recognition receptors.. Science (New York, N.Y.). 302(5653):2126-30. 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.

Wartlick O, Mumcu P, Kicheva A, Bittig T, Seum C, Jülicher F, González-Gaitán M. 2011. Dynamics of Dpp signaling and proliferation control.. Science (New York, N.Y.). 331(6021):1154-9. Abstract

Brunner D, Dücker K, Oellers N, Hafen E, Scholz H, Klämbt C. 1994. The ETS domain protein pointed-P2 is a target of MAP kinase in the sevenless signal transduction pathway.. Nature. 370(6488):386-9. Abstract

Bischoff V, Vignal C, Boneca IG, Michel T, Hoffmann JA, Royet J. 2004. Function of the drosophila pattern-recognition receptor PGRP-SD in the detection of Gram-positive bacteria.. Nature immunology. 5(11):1175-80. Abstract

Orlando DA, Lin CY, Bernard A, Wang JY, Socolar JES, Iversen ES, Hartemink AJ, Haase SB. 2008. Global control of cell-cycle transcription by coupled CDK and network oscillators. Nature. 453(7197):944-7. Abstract

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

Pepinsky RB, Zeng C, Wen D, Rayhorn P, Baker DP, Williams KP, Bixler SA, Ambrose CM, Garber EA, Miatkowski K et al.. 1998. Identification of a palmitic acid-modified form of human Sonic hedgehog.. The Journal of biological chemistry. 273(22):14037-45. 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

Pelte N, Robertson AS, Zou Z, Belorgey D, Dafforn TR, Jiang H, Lomas D, Reichhart J-M, Gubb D. 2006. Immune challenge induces N-terminal cleavage of the Drosophila serpin Necrotic.. Insect biochemistry and molecular biology. 36(1):37-46. Abstract

Baena-Lopez LA, Nojima H, Vincent J-P. 2012. Integration of morphogen signalling within the growth regulatory network.. Current opinion in cell biology. 24(2):166-72. Abstract

Grieco L, Calzone L, Bernard-Pierrot I, Radvanyi F, Kahn-Perlès B, Thieffry D. 2013. Integrative modelling of the influence of MAPK network on cancer cell fate decision.. PLoS computational biology. 9(10):e1003286. Abstract

Yokouchi M, Kondo T, Houghton A, Bartkiewicz M, Horne WC, Zhang H, Yoshimura A, Baron R. 1999. Ligand-induced ubiquitination of the epidermal growth factor receptor involves the interaction of the c-Cbl RING finger and UbcH7.. The Journal of biological chemistry. 274(44):31707-12. Abstract

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

Saez-Rodriguez J, Simeoni L, Lindquist JA, Hemenway R, Bommhardt U, Arndt B, Haus U-U, Weismantel R, Gilles ED, Klamt S et al.. 2007. A logical model provides insights into T cell receptor signaling.. PLoS computational biology. 3(8):e163. Abstract