X. Morelli and Y. Collette, Protein Protein Interaction Inhibition (2P2I) Combining High Throughput and Virtual Screening: Application to the HIV-1 Nef protein
URL : https://hal.archives-ouvertes.fr/hal-00473817

L. Hakes, J. W. Pinney, D. L. Robertson, and S. C. Lovell, Protein-protein interaction networks and biology???what's the connection?, Nature Biotechnology, vol.340, issue.1, pp.69-72, 2008.
DOI : 10.1016/j.jmb.2004.04.047

M. R. Arkin, Y. Tang, and J. A. Wells, Small-Molecule Inhibitors of Protein-Protein Interactions: Progressing toward the Reality, Chemistry & Biology, vol.21, issue.9, pp.1102-1114, 2014.
DOI : 10.1016/j.chembiol.2014.09.001

J. A. Wells and C. L. Mcclendon, Reaching for high-hanging fruit in drug discovery at protein???protein interfaces, Nature, vol.12, issue.7172, pp.1001-1009, 2007.
DOI : 10.1128/MCB.17.12.7040

L. H. Hartwell, J. J. Hopfield, S. Leibler, and A. W. Murray, From molecular to modular cell biology, Nature, vol.269, issue.6761supp, pp.47-52, 1999.
DOI : 10.1126/science.7624793

L. Zhao and J. Chmielewski, Inhibiting protein???protein interactions using designed molecules, Current Opinion in Structural Biology, vol.15, issue.1, pp.31-34, 2005.
DOI : 10.1016/j.sbi.2005.01.005

A. W. Ghoorah, M. D. Devignes, M. Smail-tabbone, and D. W. Ritchie, Protein docking using case-based reasoning, Proteins: Structure, Function, and Bioinformatics, vol.78, issue.15, pp.2150-2158, 2013.
DOI : 10.1002/prot.22830
URL : https://hal.archives-ouvertes.fr/hal-00880341

S. Sacquin-mora, A. Carbone, and R. Lavery, Identification of Protein Interaction Partners and Protein???Protein Interaction Sites, Journal of Molecular Biology, vol.382, issue.5, pp.1276-1289, 2008.
DOI : 10.1016/j.jmb.2008.08.002

B. G. Pierce, K. Wiehe, H. Hwang, B. H. Kim, T. Vreven et al., ZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers, Interactive Docking Prediction of Protein-Protein Complexes and Symmetric Multimers, pp.1771-1773, 2014.
DOI : 10.1093/bioinformatics/btu097

A. Lopes, S. Sacquin-mora, V. Dimitrova, E. Laine, Y. Ponty et al., Protein-Protein Interactions in a Crowded Environment: An Analysis via Cross-Docking Simulations and Evolutionary Information, PLoS Computational Biology, vol.52, issue.6, p.1003369
DOI : 10.1371/journal.pcbi.1003369.s001
URL : https://hal.archives-ouvertes.fr/hal-00875116

E. Laine and A. Carbone, Protein social behavior makes a stronger signal for partner identification than surface geometry, Proteins: Structure, Function, and Bioinformatics, vol.403, issue.1, pp.137-154, 2017.
DOI : 10.1038/35001009
URL : https://hal.archives-ouvertes.fr/hal-01400887

J. Fernandez-recio, M. Totrov, and R. Abagyan, Identification of Protein???Protein Interaction Sites from Docking Energy Landscapes, Journal of Molecular Biology, vol.335, issue.3, pp.843-865, 2004.
DOI : 10.1016/j.jmb.2003.10.069

L. Vamparys, B. Laurent, and A. Carbone, Great interactions: How binding incorrect partners can teach us about protein recognition and function, Proteins: Structure, Function, and Bioinformatics, vol.60, issue.10, pp.1408-1421, 2016.
DOI : 10.1002/prot.20554
URL : https://hal.archives-ouvertes.fr/hal-01347160

M. F. Lensink and S. J. Wodak, Docking and scoring protein interactions: CAPRI 2009, Proteins: Structure, Function, and Bioinformatics, vol.38, issue.Web Server issu, pp.3073-3084, 2010.
DOI : 10.1002/prot.22818

F. Cazals, F. Proust, R. P. Bahadur, and J. Janin, Revisiting the Voronoi description of protein-protein interfaces, Protein Science, vol.15, issue.9, pp.2082-2092, 2006.
DOI : 10.1110/ps.062245906
URL : https://hal.archives-ouvertes.fr/hal-00796062

T. Iwai, C. H. Greil, and P. , FAST PARTICLE PAIR DETECTION ALGORITHMS FOR PARTICLE SIMULATIONS, International Journal of Modern Physics C, vol.10, issue.05, 1999.
DOI : 10.1108/02644409510799550

B. K. Mishra, A review of computer simulation of tumbling mills by the discrete element method, International Journal of Mineral Processing, vol.71, issue.1-4, pp.73-95, 2003.
DOI : 10.1016/S0301-7516(03)00031-0

R. Chen and Z. Weng, Docking unbound proteins using shape complementarity, desolvation, and electrostatics, Proteins: Structure, Function, and Genetics, vol.8, issue.3, pp.281-294, 2002.
DOI : 10.1110/ps.8.3.603

C. Wang, P. Bradley, and D. Baker, Protein???Protein Docking with Backbone Flexibility, Journal of Molecular Biology, vol.373, issue.2, pp.503-519, 2007.
DOI : 10.1016/j.jmb.2007.07.050

A. Tovchigrechko and I. A. Vakser, GRAMM-X public web server for protein-protein docking, Nucleic Acids Research, vol.34, issue.Web Server, pp.310-314, 2006.
DOI : 10.1093/nar/gkl206
URL : https://academic.oup.com/nar/article-pdf/34/suppl_2/W310/7623130/gkl206.pdf

J. Mintseris, K. Wiehe, B. Pierce, R. Anderson, R. Chen et al., Protein-protein docking benchmark 2.0: An update, Protein-Protein Docking Benchmark 2.0: an Update, pp.214-216, 2005.
DOI : 10.1002/prot.20560