B. B. Aldridge, J. M. Burke, D. A. Lauffenburger, and P. K. Sorger, Physicochemical modelling of cell signalling pathways, Nature Cell Biology, vol.121, issue.11, pp.1195-1203, 2006.
DOI : 10.1007/BF02460092

G. Andrieux, L. Borgne, M. Théret, and N. , An integrative modeling framework reveals plasticity of TGF-?? signaling, BMC Systems Biology, vol.8, issue.1, p.1, 2014.
DOI : 10.1109/5.97301

URL : https://hal.archives-ouvertes.fr/inserm-00978313

B. Bierie and H. L. Moses, Tumour microenvironment: TGF??: the molecular Jekyll and Hyde of cancer, Nature Reviews Cancer, vol.274, issue.7, pp.506-520, 2006.
DOI : 10.4049/jimmunol.174.9.5215

N. Elkalaawy and A. Wassal, Methodologies for the modeling and simulation of biochemical networks, illustrated for signal transduction pathways: A primer, Biosystems, vol.129, pp.1-18, 2015.
DOI : 10.1016/j.biosystems.2015.01.008

A. Hamzaoui, A. Joly, and N. Boujemaa, Multi-source shared nearest neighbours for multi-modal image clustering, Multimedia Tools and Applications, vol.25, issue.11, pp.479-503, 2011.
DOI : 10.1016/S0306-4379(00)00022-3

URL : https://hal.archives-ouvertes.fr/inria-00496170

M. E. Houle, The Relevant-Set Correlation Model for Data Clustering, Statistical Analysis and Data Mining, vol.10, issue.3, pp.157-176, 2008.
DOI : 10.1016/S0022-2836(05)80360-2

URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.140.5820

H. Ikushima and K. Miyazono, Biology of Transforming Growth Factor-β Signaling, Current Pharmaceutical Biotechnology, vol.12, issue.12, pp.2099-2107, 2011.
DOI : 10.2174/138920111798808419

A. Joshi and R. Kaur, A review: Comparative study of various clustering techniques in data mining, International Journal of Advanced Research in Computer Science and Software Engineering, vol.3, issue.3, 2013.

N. Kashtan and U. Alon, Spontaneous evolution of modularity and network motifs, Proceedings of the National Academy of Sciences, vol.299, issue.5609, pp.13773-13778, 2005.
DOI : 10.1126/science.1076979

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1236541

H. A. Kestler, C. Wawra, B. Kracher, and M. Kühl, Network modeling of signal transduction: establishing the global view, BioEssays, vol.105, issue.11-12, pp.11-12, 2008.
DOI : 10.1524/itit.2006.48.3.148

W. A. Lim, Designing customized cell signalling circuits, Nature Reviews Molecular Cell Biology, vol.99, issue.6, pp.393-403, 2010.
DOI : 10.1038/nrm2904

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2975372

K. Luo, Signaling Cross Talk between TGF-??/Smad and Other Signaling Pathways, Cold Spring Harbor Perspectives in Biology, vol.37, issue.1, p.22137, 2017.
DOI : 10.1006/dbio.1999.9257

J. Massagué, TGF?? signalling in context, Nature Reviews Molecular Cell Biology, vol.18, issue.10, pp.616-630, 2012.
DOI : 10.1016/j.ccr.2010.10.023

Y. Mu, S. K. Gudey, and M. Landström, Non-Smad signaling pathways, Cell and Tissue Research, vol.274, issue.1, pp.11-20, 2012.
DOI : 10.1074/jbc.274.45.32258

S. G. Peisajovich, J. E. Garbarino, P. Wei, and W. A. Lim, Rapid Diversification of Cell Signaling Phenotypes by Modular Domain Recombination, Science, vol.26, issue.2, pp.368-372, 2010.
DOI : 10.1016/j.peptides.2004.10.002

A. Rauzy, Guarded transition systems: A new states/events formalism for reliability studies, Proceedings of the Institution of Mechanical Engineers, pp.495-505, 2008.
DOI : 10.1016/S0951-8320(02)00042-X

A. Saadatpour and R. Albert, Discrete dynamic modeling of signal transduction networks . Computational Modeling of Signaling Networks pp, pp.255-272, 2012.

A. Saadatpour, R. Albert, and T. C. Reluga, A Reduction Method for Boolean Network Models Proven to Conserve Attractors, SIAM Journal on Applied Dynamical Systems, vol.12, issue.4, pp.1997-2011, 2013.
DOI : 10.1137/13090537X

URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.639.1367

R. Samaga and S. Klamt, Modeling approaches for qualitative and semi-quantitative analysis of cellular signaling networks, Cell Communication and Signaling, vol.11, issue.1, p.1, 2013.
DOI : 10.1098/rsif.2008.0363

C. F. Schaefer, K. Anthony, S. Krupa, J. Buchoff, M. Day et al., PID: the Pathway Interaction Database, Nucleic Acids Research, vol.37, issue.suppl_1, pp.674-679, 2009.
DOI : 10.1093/nar/gkn653

URL : http://doi.org/10.1093/nar/gkn653

J. D. Scott and T. Pawson, Cell Signaling in Space and Time: Where Proteins Come Together and When They're Apart, Science, vol.461, issue.7260, pp.1220-1224, 2009.
DOI : 10.1038/nature08241

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3041271

A. Subramanian, P. Tamayo, V. K. Mootha, S. Mukherjee, B. L. Ebert et al., Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles, Proceedings of the National Academy of Sciences, pp.15545-15550, 2005.
DOI : 10.1093/bioinformatics/btg363

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1239896

F. Supek, M. Bo?njak, N. ?kunca, and T. ?muc, REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms, PLoS ONE, vol.6, issue.7, p.21800, 2011.
DOI : 10.1371/journal.pone.0021800.t001

URL : http://doi.org/10.1371/journal.pone.0021800

M. Tian, J. R. Neil, and W. P. Schiemann, Transforming growth factor-?? and the hallmarks of cancer, Cellular Signalling, vol.23, issue.6, pp.951-962, 2011.
DOI : 10.1016/j.cellsig.2010.10.015

J. G. Zañudo and R. Albert, An effective network reduction approach to find the dynamical repertoire of discrete dynamic networks, Chaos: An Interdisciplinary Journal of Nonlinear Science, vol.26, issue.2, p.25111, 2013.
DOI : 10.1016/0167-2789(90)90174-N

Y. Zhao, J. Kim, and M. Filippone, Aggregation Algorithm Towards Large-Scale Boolean Network Analysis, IEEE Transactions on Automatic Control, vol.58, issue.8, pp.1976-1985, 2013.
DOI : 10.1109/TAC.2013.2251819

Z. Zi, D. A. Chapnick, and X. Liu, Dynamics of TGF-??/Smad signaling, FEBS Letters, vol.22, issue.14, pp.1921-1928, 2012.
DOI : 10.1016/j.cellsig.2010.01.016