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2021
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.
2020
Floc’hlay S, Molina MD, Hernandez C, Haillot E, Thomas-Chollier M, Lepage T, Thieffry D.  2020.  Deciphering and modelling the TGF-β signalling interplays specifying the dorsal-ventral axis of the sea urchin embryo. Development.
2018
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.
2016
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.
2015
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
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
2011
Fullaondo A, García-Sánchez S, Sanz-Parra A, Recio E, Lee SY, Gubb D.  2011.  Spn1 regulates the GNBP3-dependent Toll signaling pathway in Drosophila melanogaster.. Molecular and cellular biology. 31(14):2960-72. Abstract
2009
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
Sahin O, Fröhlich H, Löbke C, Korf U, Burmester S, Majety M, Mattern J, Schupp I, Chaouiya C, Thieffry D et al..  2009.  Modeling ERBB receptor-regulated G1/S transition to find novel targets for de novo trastuzumab resistance. BMC systems biology. 3:1. Abstract
2008
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
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
2007
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
2006
Queralt E, Lehane C, Novak B, Uhlmann F.  2006.  Downregulation of PP2A(Cdc55) phosphatase by separase initiates mitotic exit in budding yeast.. Cell. 125(4):719-32. 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
Klamt S, Saez-Rodriguez J, Lindquist JA, Simeoni L, Gilles ED.  2006.  A methodology for the structural and functional analysis of signaling and regulatory networks. BMC Bioinformatics. 7(1):56.
2004
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
2003
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
Weber ANR, Tauszig-Delamasure S, Hoffmann JA, Lelièvre E, Gascan H, Ray KP, Morse MA, Imler J-L, Gay NJ.  2003.  Binding of the Drosophila cytokine Spätzle to Toll is direct and establishes signaling.. Nature immunology. 4(8):794-800. Abstract
2002
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
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
2001
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
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
Harrison JC, Bardes ES, Ohya Y, Lew DJ.  2001.  A role for the Pkc1p/Mpk1p kinase cascade in the morphogenesis checkpoint.. Nature cell biology. 3(4):417-20. Abstract
1999
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
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


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