R. Thimme, J. Bukh, H. C. Spangenberg, S. Wieland, and J. Pemberton, Viral and immunological determinants of hepatitis C virus clearance, persistence, and disease, Proc Natl Acad Sci U S A, vol.99, pp.15661-15668, 2002.

J. M. Pestka, M. B. Zeisel, E. Blä-ser, P. Schürmann, and B. Bartosch, Rapid induction of virus-neutralizing antibodies and viral clearance in a single-source outbreak of hepatitis C, Proceedings of the National Academy of Sciences, vol.104, pp.6025-6030, 2007.
URL : https://hal.archives-ouvertes.fr/inserm-00395910

D. Ge, J. Fellay, A. J. Thompson, J. S. Simon, and K. V. Shianna, Genetic variation in IL28B predicts hepatitis C treatment-induced viral clearance, Nature, vol.461, pp.399-401, 2009.

A. Wohnsland, W. P. Hofmann, and C. Sarrazin, Viral Determinants of Resistance to Treatment in Patients with Hepatitis C, Clinical Microbiology Reviews, vol.20, pp.23-38, 2007.

J. Pawlotsky, Hepatitis: HCV variability, the immune system and resistance to antiviral drugs, Nat Rev Gastroenterol Hepatol, vol.6, pp.383-385, 2009.

F. Legrand-abravanel, P. Colson, H. Leguillou-guillemette, L. Alric, and I. Ravaux, Influence of the HCV subtype on the virological response to pegylated interferon and ribavirin therapy, Journal of Medical Virology, vol.81, pp.2029-2035, 2009.

J. M. Pawlotsky, Treatment failure and resistance with direct-acting antiviral drugs against hepatitis C virus, Hepatology, vol.53, pp.1742-1751, 2011.

C. Sarrazin, C. Hezode, S. Zeuzem, and J. M. Pawlotsky, Antiviral strategies in hepatitis C virus infection, Journal of Hepatology, vol.56, pp.88-100, 2012.

T. Von-hahn, J. C. Yoon, H. Alter, C. M. Rice, and B. Rehermann, Hepatitis C virus continuously escapes from neutralizing antibody and T-cell responses during chronic infection in vivo, Gastroenterology, vol.132, pp.667-678, 2007.

Z. Y. Keck, S. H. Li, J. Xia, V. Hahn, T. Balfe et al., Mutations in hepatitis C virus E2 located outside the CD81 binding sites lead to escape from broadly neutralizing antibodies but compromise virus infectivity, Journal of Virology, vol.83, pp.6149-6160, 2009.

S. Fafi-kremer, I. Fofana, E. Soulier, P. Carolla, and P. Meuleman, Viral entry and escape from antibody-mediated neutralization influence hepatitis C virus reinfection in liver transplantation, The Journal of Experimental Medicine, vol.207, pp.2019-2031, 2010.

I. Fofana, S. Fafi-kremer, P. Carolla, C. Fauvelle, and M. N. Zahid, Mutations That Alter Use of Hepatitis C Virus Cell Entry Factors Mediate Escape From Neutralizing Antibodies, Gastroenterology, vol.143, pp.223-233, 2012.
URL : https://hal.archives-ouvertes.fr/inserm-00701511

M. B. Zeisel, I. Fofana, S. Fafi-kremer, and T. F. Baumert, Hepatitis C virus entry into hepatocytes: Molecular mechanisms and targets for antiviral therapies, Journal of hepatology, vol.54, pp.566-576, 2011.
URL : https://hal.archives-ouvertes.fr/inserm-00701487

Z. Y. Keck, A. Op-de-beeck, K. G. Hadlock, J. Xia, and T. K. Li, Hepatitis C virus E2 has three immunogenic domains containing conformational epitopes with distinct properties and biological functions, Journal of Virology, vol.78, pp.9224-9232, 2004.

D. R. Taylor, S. T. Shi, P. R. Romano, G. N. Barber, and M. Lai, Inhibition of the Interferon-Inducible Protein Kinase PKR by HCV E2, Protein. Science, vol.285, pp.107-110, 1999.

E. Schvoerer, R. Moenne-loccoz, J. M. Murray, A. Velay, and M. Turek, Hepatitis C Virus Envelope Glycoprotein Signatures Are Associated With Treatment Failure and Modulation of Viral Entry and Neutralization, Journal of Infectious Diseases, vol.207, pp.1306-1315, 2013.
URL : https://hal.archives-ouvertes.fr/hal-02014345

D. Altschuh, A. M. Lesk, A. C. Bloomer, and A. Klug, Correlation of co-ordinated amino acid substitutions with function in viruses related to tobacco mosaic virus, Journal of Molecular Biology, vol.193, pp.693-707, 1987.

U. Gobel, C. Sander, R. Schneider, and A. Valencia, Correlated mutations and residue contacts in proteins, Proteins, vol.18, pp.309-317, 1994.

E. Eyal, M. Frenkel-morgenstern, V. Sobolev, and S. Pietrokovski, A pair-to-pair amino acids substitution matrix and its applications for protein structure prediction, Proteins, vol.67, pp.142-153, 2007.

B. Lee, K. Park, and D. Kim, Analysis of the residue-residue coevolution network and the functionally important residues in proteins, Proteins: Structure, Function, and Bioinformatics, vol.72, pp.863-872, 2008.

R. Aurora, Genome-wide hepatitis C virus amino acid covariance networks can predict response to antiviral therapy in humans, The Journal of Clinical Investigation, vol.119, pp.225-236, 2009.

G. L. Nemhauser and L. A. Wolsey, Integer and combinatorial optimization, 1988.

W. P. Hofmann, S. Zeuzem, and C. Sarrazin, Hepatitis C virus-related resistance mechanisms to interferon [alpha]-based antiviral therapy, Journal of Clinical Virology, vol.32, pp.86-91, 2005.

R. Brown, A. W. Tarr, C. P. Mcclure, V. S. Juttla, and N. Tagiuri, Crossgenotype characterization of genetic diversity and molecular adaptation in hepatitis C virus envelope glycoprotein genes, Journal of General Virology, vol.88, pp.458-469, 2007.

T. Krey, J. Alayer, C. M. Kikuti, A. Saulnier, and L. Damier-piolle, The Disulfide Bonds in Glycoprotein E2 of Hepatitis C Virus Reveal the Tertiary Organization of the Molecule, PLoS Pathog, vol.6, p.1000762, 2010.
URL : https://hal.archives-ouvertes.fr/pasteur-00460826

M. Troesch, I. Meunier, P. Lapierre, N. Lapointe, and F. Alvarez, Study of a novel hypervariable region in hepatitis C virus (HCV) E2 envelope glycoprotein, Virology, vol.352, pp.357-367, 2006.

J. Lara, G. Xia, M. Purdy, and Y. Khudyakov, Coevolution of the Hepatitis C Virus Polyprotein Sites in Patients on Combined Pegylated Interferon and Ribavirin Therapy, Journal of Virology, vol.85, pp.3649-3663, 2011.

F. Dubois, J. Desenclos, N. Mariotte, and A. Goudeau, The Collaborative Study G (1997) Hepatitis C in a French population-based survey, 1994: Seroprevalence, frequency of viremia, genotype distribution, and risk factors, Hepatology, vol.25, pp.1490-1496

Z. Y. Keck, O. Olson, M. Gal-tanamy, J. Xia, and A. H. Patel, A point mutation leading to hepatitis C virus escape from neutralization by a monoclonal antibody to a conserved conformational epitope, Journal of Virology, vol.82, pp.6067-6072, 2008.