E. Alamyar, V. Giudicelli, S. Li, P. Duroux, and M. Lefranc, IMGT/HighV-QUEST: the IMGT R web portal for immunoglobulin (IG) or antibody and t cell receptor (TR) analysis from NGS high throughput and deep sequencing, Immunome Research, vol.8, issue.1, 2012.

R. Arnaout, W. Lee, P. Cahill, T. Honan, T. Sparrow et al., High-Resolution Description of Antibody Heavy-Chain Repertoires in Humans, PLoS ONE, vol.28, issue.8, p.22365, 2011.
DOI : 10.1371/journal.pone.0022365.t001

R. Ben-hamo and S. Efroni, The whole-organism heavy chain B cell repertoire from Zebrafish self-organizes into distinct network features, BMC Systems Biology, vol.5, issue.1, p.27, 2011.
DOI : 10.1093/nar/gkh435

URL : https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/1752-0509-5-27?site=bmcsystbiol.biomedcentral.com

J. Benichou, R. Ben-hamo, Y. Louzoun, and S. Efroni, Rep-Seq: uncovering the immunological repertoire through next-generation sequencing, Immunology, vol.37, issue.Suppl, pp.183-91, 2012.
DOI : 10.1093/nar/gkn838

URL : http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2567.2011.03527.x/pdf

D. A. Bolotin, M. Shugay, I. Z. Mamedov, V. Ekaterina, M. A. Putintseva et al., MiTCR: software for T-cell receptor sequencing data analysis, Nature Methods, vol.47, issue.9, pp.813-814, 2013.
DOI : 10.1038/bmt.2012.44

D. A. Bolotin, S. Poslavsky, I. Mitrophanov, M. Shugay, I. Z. Mamedov et al., MiXCR: software for comprehensive adaptive immunity profiling, Nature Methods, vol.4, issue.5, pp.380-381, 2015.
DOI : 10.1002/eji.201242517

S. D. Boyd, E. L. Marshall, J. D. Merker, J. M. Maniar, L. N. Zhang et al., Measurement and clinical monitoring of human lymphocyte clonality by massively parallel VDJ pyrosequencing, A. Z. Science Translational Medicine, vol.1, issue.12, pp.12-23, 2009.

X. Brochet, M. Lefranc, and V. Giudicelli, IMGT/V-QUEST: the highly customized and integrated system for IG and TR standardized V-J and V-D-J sequence analysis, Nucleic Acids Research, vol.22, issue.1, pp.36-503, 2008.
DOI : 10.1038/sj.leu.2404969

URL : https://hal.archives-ouvertes.fr/hal-00322389

M. Brüggemannbr¨brüggemann, T. Raff, and M. Kneba, Has MRD monitoring superseded other prognostic factors in adult ALL?, Blood, vol.120, issue.23, pp.4470-4481, 2012.
DOI : 10.1182/blood-2012-06-379040

R. Castro, L. Jouneau, H. Pham, O. Bouchez, V. Giudicelli et al., Teleost Fish Mount Complex Clonal IgM and IgT Responses in Spleen upon Systemic Viral Infection, PLoS Pathogens, vol.29, issue.1, p.1003098, 2013.
DOI : 10.1371/journal.ppat.1003098.s014

URL : https://hal.archives-ouvertes.fr/hal-01190791

H. Cavé, . Van-der-werff-ten, J. Bosch, S. Suciu, C. Guidal et al., Clinical Significance of Minimal Residual Disease in Childhood Acute Lymphoblastic Leukemia, New England Journal of Medicine, vol.339, issue.9, pp.591-598, 1998.
DOI : 10.1056/NEJM199808273390904

M. Faham, J. Zheng, M. Moorhead, V. E. Carlton, P. Stow et al., Deepsequencing approach for minimal residual disease detection in acute lymphoblastic leukemia, Blood, issue.26, pp.1205173-5180, 2012.

J. D. Freeman, R. L. Warren, J. R. Webb, B. H. Nelson, and R. A. Holt, Profiling the T-cell receptor beta-chain repertoire by massively parallel sequencing, Genome Research, vol.19, issue.10, pp.1817-1841, 2009.
DOI : 10.1101/gr.092924.109

V. Gandemer, C. Pochon, E. Oger, J. H. Dalle, G. Michel et al., Clinical value of pre-transplant minimal residual disease in childhood lymphoblastic leukaemia: the results of the French minimal residual disease-guided protocol, British Journal of Haematology, vol.119, issue.3, pp.392-401, 2014.
DOI : 10.1182/blood-2011-09-380386

URL : https://hal.archives-ouvertes.fr/hal-01064611

C. Gawad, F. Pepin, V. Carlton, M. Klinger, A. Logan et al., Massive evolution of the immunoglobulin heavy chain locus in children with B precursor acute lymphoblastic leukemia, Blood, vol.120, issue.22, pp.1204407-1204424, 2012.
DOI : 10.1182/blood-2012-05-429811

G. Kerst, H. Kreyenberg, C. Roth, C. Well, K. Dietz et al., Concurrent detection of minimal residual disease (MRD) in childhood acute lymphoblastic leukaemia by flow cytometry and real-time PCR, British Journal of Haematology, vol.45, issue.6, pp.774-782, 2005.
DOI : 10.1182/blood.V99.12.4386

L. Kuchenbecker, M. Nienen, J. Hecht, A. U. Neumann, N. Babel et al., IMSEQ???a fast and error aware approach to immunogenetic sequence analysis, Bioinformatics, vol.4, issue.18, pp.31-309, 2015.
DOI : 10.1093/bioinformatics/btt593

U. Laserson, F. Vigneault, D. Gadala-maria, G. Yaari, M. Uduman et al., High-resolution antibody dynamics of vaccine-induced immune responses, Proceedings of the National Academy of Sciences, pp.1114928-2933, 2014.
DOI : 10.1038/nbt.2539

M. Lefranc, IMGT, the International ImMunoGeneTics Information System, Cold Spring Harbor Protocols, issue.6, p.2011, 2011.
DOI : 10.1101/pdb.top115

URL : https://hal.archives-ouvertes.fr/hal-00018647

A. C. Logan, B. Zhang, B. Narasimhan, V. Carlton, J. Zheng et al., Minimal residual disease quantification using consensus primers and high-throughput IGH sequencing predicts post-transplant relapse in chronic lymphocytic leukemia, Leukemia, vol.2012, issue.8, pp.1659-1665, 2013.
DOI : 10.1016/j.bbmt.2010.07.001

URL : http://www.nature.com/leu/journal/v27/n8/pdf/leu201352a.pdf

A. C. Logan, H. Gao, C. Wang, B. Sahaf, C. D. Jones et al., High-throughput VDJ sequencing for quantification of minimal residual disease in chronic lymphocytic leukemia and immune reconstitution assessment, Proceedings of the National Academy of Sciences of the United States of America, pp.21194-21199, 2011.
DOI : 10.1093/nar/gki010

A. C. Logan, N. Vashi, M. Faham, V. Carlton, K. Kong et al., Immunoglobulin and T Cell Receptor Gene High-Throughput Sequencing Quantifies Minimal Residual Disease in Acute Lymphoblastic Leukemia and Predicts Post-Transplantation Relapse and Survival, Biology of Blood and Marrow Transplantation, vol.20, issue.9, pp.1307-1313, 2014.
DOI : 10.1016/j.bbmt.2014.04.018

E. Market and F. N. Papavasiliou, V(D)J Recombination and the Evolution of the Adaptive Immune System, PLoS Biology, vol.93, issue.1, p.16, 2003.
DOI : 10.1371/journal.pbio.0000016.t001

N. Niklas, J. Pröllpr¨pröll, J. Weinberger, A. Zopf, K. Wiesinger et al., Qualifying high-throughput immune repertoire sequencing, Cellular Immunology, vol.288, issue.1-2, pp.31-38, 2014.
DOI : 10.1016/j.cellimm.2014.02.001

M. G. Ross, C. Russ, M. Costello, A. Hollinger, N. J. Lennon et al., Characterizing and measuring bias in sequence data, Genome Biology, vol.14, issue.5, p.51, 2013.
DOI : 10.1073/pnas.1017351108

URL : http://doi.org/10.1186/gb-2013-14-5-r51

N. Thomas, J. Heather, W. Ndifon, J. Shawe-taylor, and B. Chain, Decombinator: a tool for fast, efficient gene assignment in T-cell receptor sequences using a finite state machine, Bioinformatics, vol.21, issue.5, pp.29542-550, 2013.
DOI : 10.1101/gr.115428.110

S. Tonegawa, Somatic generation of antibody diversity, Nature, vol.26, issue.5909, pp.575-581, 1983.
DOI : 10.1128/MCB.2.7.829

J. J. Van-dongen, T. Szczepá-nski, and H. J. Adriaansen, Immunobiology of leukemia, Leukemia, pp.85-130, 2002.

J. J. Van-dongen, A. W. Langerak, M. Brüggemannbr¨brüggemann, P. A. Evans, M. Hummel et al., Design and standardization of PCR primers and protocols for detection of clonal immunoglobulin and T-cell receptor gene recombinations in suspect lymphoproliferations, Leukemia, issue.12, pp.172257-317, 2003.

J. J. Van-dongen, V. H. Van-der-velden, M. Brüggemannbr¨brüggemann, and A. Orfao, Minimal residual disease (MRD) diagnostics in acute lymphoblastic leukemia (ALL): need for sensitive, fast and standardized technologies, Blood, issue.26, pp.1253996-4009, 2015.

R. L. Warren, B. H. Nelson, and R. A. Holt, Profiling model T-cell metagenomes with short reads, Bioinformatics, vol.86, issue.4, pp.458-64, 2009.
DOI : 10.1038/labinvest.3700381

URL : https://academic.oup.com/bioinformatics/article-pdf/25/4/458/16892549/btp010.pdf

R. L. Warren, J. D. Freeman, T. Zeng, G. Choe, S. Munro et al., Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes, Genome Research, vol.21, issue.5, pp.790-797, 2011.
DOI : 10.1101/gr.115428.110

J. A. Weinstein, N. Jiang, R. A. White, D. S. Fisher, and S. R. Quake, High-Throughput Sequencing of the Zebrafish Antibody Repertoire, Science, vol.88, issue.3, pp.324807-324817, 2009.
DOI : 10.1146/annurev.es.05.110174.001441

W. Weng, R. Armstrong, S. Arai, C. Desmarais, R. Hoppe et al., Minimal residual disease monitoring with highthroughput sequencing of T cell receptors in cutaneous T cell lymphoma, Science Translational Medicine, vol.5, issue.214, 2013.

D. Wu, A. Sherwood, J. R. Fromm, S. S. Winter, K. P. Dunsmore et al., High-Throughput Sequencing Detects Minimal Residual Disease in Acute T Lymphoblastic Leukemia, Science Translational Medicine, vol.20, issue.suppl_1, pp.134-63, 2012.
DOI : 10.1093/bioinformatics/bth945

X. Yang, D. Liu, N. Lv, F. Zhao, F. Liu et al., TCRklass: A New K-String???Based Algorithm for Human and Mouse TCR Repertoire Characterization, The Journal of Immunology, vol.194, issue.1, 2014.
DOI : 10.4049/jimmunol.1400711

J. Ye, N. Ma, T. L. Madden, and J. M. Ostell, IgBLAST: an immunoglobulin variable domain sequence analysis tool, Nucleic Acids Research, vol.113, issue.W1, pp.34-40, 2013.
DOI : 10.1172/JCI20255

URL : https://academic.oup.com/nar/article-pdf/41/W1/W34/16942305/gkt382.pdf

Y. Monod, M. Giudicelli, V. Chaume, D. Lefranc, M. et al., IMGT/JunctionAnalysis: the first tool for the analysis of the immunoglobulin and T cell receptor complex, Bioinformatics, issue.S1, pp.20-379, 2004.