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Journal Article
Calzone L, Tournier L, Fourquet S, Thieffry D, Zhivotovsky B, Barillot E, Zinovyev A.  2010.  Mathematical modelling of cell-fate decision in response to death receptor engagement.. PLoS computational biology. 6(3):e1000702. 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
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.
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
Abou-Jaoudé W, Monteiro PT, Naldi A, Grandclaudon M, Soumelis V, Chaouiya C, Thieffry D.  2015.  Model checking to assess T-helper cell plasticity. Frontiers in Bioengineering and Biotechnology. 2(86) Abstract
Novák B, Tyson JJ.  2004.  A model for restriction point control of the mammalian cell cycle. Journal of Theoretical Biology. 230(4):563-579.
de Jong H.  2002.  Modeling and simulation of genetic regulatory systems: a literature review.. J Comput Biol. 9(1):67-103. Abstract
Sánchez-Osorio I, Hernández-Martínez CA, Martínez-Antonio A.  2017.  Modeling Asymmetric Cell Division in Caulobacter crescentus Using a Boolean Logic Approach.. Results and problems in cell differentiation. 61:1-21. 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
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
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..
Remy E, Rebouissou S, Chaouiya C, Zinovyev A, Radvanyi F, Calzone L.  2015.  A modelling approach to explain mutually exclusive and co-occurring genetic alterations in bladder tumorigenesis.. Cancer research. Abstract
Mombach J, Bugs C, Chaouiya C.  2014.  Modelling the onset of senescence at the G1/S cell cycle checkpoint. BMC Genomics. 15:S7.
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
Fuerstenberg S, Giniger E.  1998.  Multiple roles for notch in Drosophila myogenesis.. Developmental biology. 201(1):66-77. Abstract
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
MENDOZA L.  2006.  A network model for the control of the differentiation process in Th cells. Biosystems. 84(2):101-114.
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
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
Wilson CW, Chuang P-T.  2006.  New "hogs" in Hedgehog transport and signal reception.. Cell. 125(3):435-8. Abstract
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
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.
Denef N, Schüpbach T.  2003.  Patterning: JAK-STAT signalling in the Drosophila follicular epithelium.. Current biology : CB. 13(10):R388-90. 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
Sims D, Duchek P, Baum B.  2009.  PDGF/VEGF signaling controls cell size in Drosophila.. Genome biology. 10(2):R20. Abstract


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