G. Opelz, T. Wujciak, B. Dohler, S. Scherer, and J. Mytilineos, HLA compatibility and organ transplant survival. Collaborative Transplant Study, Rev Immunogenet, vol.1, p.11256424, 1999.

N. Angaswamy, V. Tiriveedhi, N. J. Sarma, V. Subramanian, C. Klein et al., Interplay between immune responses to HLA and non-HLA self-antigens in allograft rejection, Hum Immunol, vol.74, p.23876679, 2013.

J. R. Leventhal, J. M. Mathew, D. R. Salomon, S. M. Kurian, M. Suthanthiran et al., Genomic biomarkers correlate with HLA-identical renal transplant tolerance, J Am Soc Nephrol, vol.24, p.23787913, 2013.

A. Gondos, B. Döhler, H. Brenner, and G. Opelz, Kidney graft survival in Europe and the United States: strikingly different long-term outcomes, Transplantation, vol.95, p.23060279, 2013.

N. Sasaki and A. Idica, The HLA-matching effect in different cohorts of kidney transplant recipients: 10 years later, Clin Transpl, vol.PMID, p.21696046, 2010.

P. I. Terasaki, Deduction of the fraction of immunologic and non-immunologic failure in cadaver donor transplants, Clin Transpl, pp.449-452, 2002.

M. Suthanthiran, J. E. Schwartz, R. Ding, M. Abecassis, D. Dadhania et al., Urinary-cell mRNA profile and acute cellular rejection in kidney allografts, N Engl J Med, vol.369, pp.20-31, 2013.

K. C. Dorff, N. Chambwe, Z. Zeno, M. Simi, R. Shaknovich et al., Simplified Management and Analysis of Gene Expression and DNA Methylation Sequencing Data, PLoS One. Public Library of Science, vol.8, p.69666, 2013.

S. M. Kielbasa, R. Wan, K. Sato, P. Horton, and M. C. Frith, Adaptive seeds tame genomic sequence comparison, Genome Res, vol.21, 2011.

F. Campagne, K. C. Dorff, N. Chambwe, J. T. Robinson, and J. P. Mesirov, Compression of structured highthroughput sequencing data, PLoS One, vol.8, p.24260313, 2013.

A. S. Levey, J. Coresh, T. Greene, L. A. Stevens, Y. Zhang et al., Using standardized serum creatinine values in the modification of diet in renal disease study equation for estimating glomerular filtration rate, Ann Intern Med, vol.145, pp.247-254, 2006.

L. Mesnard, T. Muthukumar, M. Burbach, C. Li, H. Shang et al., Exome Sequencing and Prediction of Long-Term Kidney Allograft Function. bioRxiv. Cold Spring Harbor Labs Journals, 2015.
URL : https://hal.archives-ouvertes.fr/inserm-02150897

S. K. Takemoto, P. I. Terasaki, D. W. Gjertson, and J. M. Cecka, Twelve years' experience with national sharing of HLA-matched cadaveric kidneys for transplantation, N Engl J Med, vol.343, pp.1078-1084, 2000.

D. Dragun, R. Catar, and P. A. , Non-HLA antibodies in solid organ transplantation: recent concepts and clinical relevance, Curr Opin Organ Transplant, vol.18, pp.430-435, 2013.

D. Dragun, A. Philippe, and R. Catar, Role of non-HLA antibodies in organ transplantation, Curr Opin Organ Transplant, vol.17, p.22790079, 2012.

P. J. Phelan, P. J. Conlon, and M. A. Sparks, Genetic determinants of renal transplant outcome: where do we stand?, J Nephrol, 2014.

N. Pallet and E. Thervet, The genetics of kidney transplantation, Hum Genet, vol.131, p.21922316, 2012.

A. S. Goldfarb-rumyantzev and N. Naiman, Genetic prediction of renal transplant outcome, Curr Opin Nephrol Hypertens, vol.17, pp.573-579, 2008.

R. P. O'brien, P. J. Phelan, J. Conroy, O. Kelly, P. Green et al., A genome-wide association study of recipient genotype and medium-term kidney allograft function, Clin Transpl, vol.27, pp.379-387, 2013.

M. Varagunam, M. M. Yaqoob, B. Dohler, and G. Opelz, C3 polymorphisms and allograft outcome in renal transplantation, N Engl J Med, vol.360, 2009.

R. Lv, X. Hu, Y. Bai, H. Long, L. Xu et al., Association between IL-6 -174G/C polymorphism and acute rejection of renal allograft: evidence from a meta-analysis, Transpl Immunol, vol.26, issue.11, pp.123-130, 2011.

R. S. Schwartz, B. J. Nankivell, and S. I. Alexander, mechanisms of disease Rejection of the Kidney Allograft, N Engl J Med, vol.363, pp.1451-62, 2010.

J. L. Mountain and L. L. Cavalli-sforza, Multilocus Genotypes, a Tree of Individuals, and Human Evolutionary History, Am J Hum Genet, vol.61, p.9326336, 1997.

T. Sturniolo, E. Bono, J. Ding, L. Raddrizzani, O. Tuereci et al., Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matrices. Nat Biotechnol, vol.17, pp.555-561, 1999.
DOI : 10.1038/9858

K. J. Wood and R. Goto, Mechanisms of Rejection: Current Perspectives, Transplantation, vol.93, pp.1-10, 2012.

M. M. Scotti and M. S. Swanson, RNA mis-splicing in disease, All Rights Reserved, vol.17, pp.19-32, 2015.
DOI : 10.1038/nrg.2015.3

URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5993438

W. Mclaren, B. Pritchard, D. Rios, Y. Chen, P. Flicek et al., Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor, vol.26, pp.2069-2070, 2010.

S. Haider, B. Ballester, D. Smedley, J. Zhang, P. Rice et al., BioMart Central Portal-unified access to biological data, Nucleic Acids Res. EMBL-European Bioinformatics Institute, vol.15, 2009.
DOI : 10.1093/nar/gkp265

URL : https://hal.archives-ouvertes.fr/hal-01615159

H. Dunckley, HLA typing by SSO and SSP methods, Methods Mol Biol, vol.882, p.22665226, 2012.
DOI : 10.1007/978-1-61779-842-9_2

, Exome Variant Server NHLBI GO Exome Sequencing Project (ESP)

. Seattle and . Wa;-available,

M. C. Frith, M. Hamada, and P. Horton, Parameters for accurate genome alignment, BMC Bioinformatics. Computational Biology Research Center, Institute for Advanced Industrial Science and Technology, vol.11, p.80
DOI : 10.1186/1471-2105-11-80

URL : https://doi.org/10.1186/1471-2105-11-80

F. Campagne, K. C. Dorff, N. Chambwe, J. T. Robinson, and J. P. Mesirov, Compression of Structured HighThroughput Sequencing Data, PLoS One. Public Library of Science, vol.8, p.79871, 2013.
DOI : 10.1371/journal.pone.0079871

URL : https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0079871&type=printable

P. Danecek, A. Auton, G. Abecasis, C. A. Albers, E. Banks et al., The variant call format and VCFtools, Bioinformatics, vol.27, 2011.
DOI : 10.1093/bioinformatics/btr330

URL : https://academic.oup.com/bioinformatics/article-pdf/27/15/2156/1125001/btr330.pdf

D. Bates, M. Maechler, B. M. Bolker, and S. Walker, Fitting Linear Mixed-Effects Models using {lme4}, 2015.

B. Winter, Linear models and linear mixed effects models in R with linguistic applications, vol.1308, p.42, 2013.