J. Van-dongen, A. Voogd, I. Fentiman, C. Legrand, and R. Sylvester, Long-Term Results of a Randomized Trial Comparing Breast-Conserving Therapy With Mastectomy: European Organization for Research and Treatment of Cancer 10801 Trial, Journal of the National Cancer Institute, vol.92, issue.14, pp.1143-50, 2000.
DOI : 10.1093/jnci/92.14.1143

H. Bartelink, J. Horiot, P. Poortmans, W. Van-den-bogaert, and A. Fourquet, Impact of a Higher Radiation Dose on Local Control and Survival in Breast-Conserving Therapy of Early Breast Cancer: 10-Year Results of the Randomized Boost Versus No Boost EORTC 22881-10882 Trial, Journal of Clinical Oncology, vol.25, issue.22, pp.3259-65, 2007.
DOI : 10.1200/JCO.2007.11.4991

V. Vichapat, H. Garmo, M. Holmqvist, G. Liljegren, and F. Wä-rnberg, Tumor Stage Affects Risk and Prognosis of Contralateral Breast Cancer: Results From a Large Swedish-Population???Based Study, Journal of Clinical Oncology, vol.30, issue.28, pp.3478-3485, 2012.
DOI : 10.1200/JCO.2011.39.3645

K. Metcalfe, H. Lynch, P. Ghadirian, N. Tung, and I. Olivotto, Mutation Carriers, Journal of Clinical Oncology, vol.22, issue.12, pp.2328-2335, 2004.
DOI : 10.1200/JCO.2004.04.033

C. Carter, C. Allen, and D. Henson, Relation of tumor size, lymph node status, and survival in 24,740 breast cancer cases, Cancer, vol.45, issue.1, pp.181-188, 1989.
DOI : 10.1002/1097-0142(19890101)63:1<181::AID-CNCR2820630129>3.0.CO;2-H

A. Borg, A. Tandon, H. Sigurdsson, G. Clark, and M. Fernö, HER2/ neu Amplification predicts poor survival in Node-positive Breast Cancer, Cancer Res, vol.50, p.4332, 1990.

B. Haffty, M. Reiss, M. Beinfield, D. Fischer, and B. Ward, Ipsilateral breast tumor recurrence as a predictor of distant disease: implications for systemic therapy at the time of local relapse., Journal of Clinical Oncology, vol.14, issue.1, pp.52-57, 1996.
DOI : 10.1200/JCO.1996.14.1.52

U. Veronesi, E. Marubini, D. Vecchio, M. Manzari, A. Greco et al., Local Recurrences and Distant Metastases After Conservative Breast Cancer Treatments: Partly Independent Events, JNCI Journal of the National Cancer Institute, vol.87, issue.1, pp.19-27, 1995.
DOI : 10.1093/jnci/87.1.19

T. Smith, D. Lee, B. Turner, D. Carter, and B. Haffty, True recurrence vs. new primary ipsilateral breast tumor relapse: An analysis of clinical and pathologic differences and their implications in natural history, prognoses, and therapeutic management, International Journal of Radiation Oncology*Biology*Physics, vol.48, issue.5, pp.1281-1289, 1999.
DOI : 10.1016/S0360-3016(00)01378-X

L. Dawson, E. Chow, and P. Goss, Evolving perspectives in contralateral breast cancer, European Journal of Cancer, vol.34, issue.13, pp.2000-2009, 1998.
DOI : 10.1016/S0959-8049(98)00208-1

E. Healey, E. Cook, E. Orav, S. Schnitt, and J. Connolly, Contralateral breast cancer: clinical characteristics and impact on prognosis., Journal of Clinical Oncology, vol.11, issue.8, pp.1545-1552, 1993.
DOI : 10.1200/JCO.1993.11.8.1545

R. Ellsworth, D. Ellsworth, D. Neatrour, B. Denyarmin, and S. Lubert, Allelic Imbalance in Primary Breast Carcinomas and Metastatic Tumors of the Axillary Lymph Nodes, Molecular Cancer Research, vol.3, issue.2, pp.71-77, 2005.
DOI : 10.1158/1541-7786.MCR-04-0180

B. Weigelt, L. Wessels, A. Bosma, A. Glas, and D. Nuyten, No common denominator for breast cancer lymph node metastasis, British Journal of Cancer, vol.7, issue.8, pp.924-932, 2005.
DOI : 10.1093/nar/30.4.e15

Y. Feng, B. Sun, X. Li, L. Zhang, and Y. Niu, Differentially expressed genes between primary cancer and paired lymph node metastases predict clinical outcome of node-positive breast cancer patients, Breast Cancer Research and Treatment, vol.64, issue.5, pp.319-329, 2007.
DOI : 10.1007/s10549-006-9385-7

M. Bollet, N. Servant, P. Neuvial, C. Decraene, and I. Lebigot, High-Resolution Mapping of DNA Breakpoints to Define True Recurrences Among Ipsilateral Breast Cancers, JNCI Journal of the National Cancer Institute, vol.100, issue.1, pp.48-58, 2008.
DOI : 10.1093/jnci/djm266

URL : https://hal.archives-ouvertes.fr/hal-00204833

I. Ostrovnaya, A. Olshen, V. Seshan, I. Orlow, and D. Albertson, A metastasis or a second independent cancer? Evaluating the clonal origin of tumors using array copy number data, Statistics in Medicine, vol.25, pp.1608-1621, 2010.
DOI : 10.1093/bioinformatics/btp132

N. West, V. Panet-raymond, P. Truong, C. Alexander, and S. Babinsky, Intratumoral Immune Responses Can Distinguish New Primary and True Recurrence Types of Ipsilateral Breast Tumor Recurrences (IBTR), Breast Cancer: Basic and Clinical Research, vol.5, pp.105-115, 2011.
DOI : 10.4137/BCBCR.S7344

F. Vicini, J. Antonucci, N. Goldstein, M. Wallace, and L. Kestin, The use of molecular assays to establish definitively the clonality of ipsilateral breast tumor recurrences and patterns of in-breast failure in patients with early-stage breast cancer treated with breast-conserving therapy, Cancer, vol.195, issue.7, pp.1264-72, 2007.
DOI : 10.1002/cncr.22529

J. Van-der-sijp, J. Van-meerbeeck, A. Maat, P. Zondervan, and H. Sleddens, Determination of the Molecular Relationship Between Multiple Tumors Within One Patient Is of Clinical Importance, Journal of Clinical Oncology, vol.20, issue.4, pp.1105-1114, 2002.
DOI : 10.1200/JCO.2002.20.4.1105

A. Shibata, Y. Tsai, M. Press, B. Henderson, and P. Jones, Clonal Analysis of bilateral breast cancer, Cancer Res, vol.2, pp.743-748, 1996.

S. Brommesson, G. Jönsson, C. Strand, D. Grabau, and P. Malmström, Tiling array-CGH for the assessment of genomic similarities among synchronous unilateral and bilateral invasive breast cancer tumor pairs, BMC Clinical Pathology, vol.100, issue.1, p.6, 2008.
DOI : 10.1093/jnci/djm266

E. Imyanitov, E. Suspitsin, M. Grigoriev, A. Togo, and E. Belogubova, Concordance of allelic imbalance profiles in synchronous and metachronous bilateral breast carcinomas, International Journal of Cancer, vol.58, issue.5, pp.557-564, 2002.
DOI : 10.1002/ijc.10530

A. Razin and A. Riggs, DNA methylation and gene function, Science, vol.210, issue.4470, pp.604-614, 1980.
DOI : 10.1126/science.6254144

P. Tate and A. Bird, Effects of DNA methylation on DNA-binding proteins and gene expression, Current Opinion in Genetics & Development, vol.3, issue.2, pp.226-257, 1993.
DOI : 10.1016/0959-437X(93)90027-M

A. Bird, DNA methylation patterns and epigenetic memory, Genes & Development, vol.16, issue.1, pp.6-21, 2002.
DOI : 10.1101/gad.947102

URL : http://www.genesdev.org/cgi/content/short/16/1/6

S. Baylin, M. Esteller, M. Rountree, K. Bachman, and K. Schuebel, Aberrant patterns of DNA methylation, chromatin formation and gene expression in cancer, Human Molecular Genetics, vol.10, issue.7, pp.683-692, 2001.
DOI : 10.1093/hmg/10.7.687

P. Laird and R. Jaenisch, DNA methylation and cancer, Human Molecular Genetics, vol.3, issue.suppl_1, pp.1487-95, 1994.
DOI : 10.1093/hmg/3.suppl_1.1487

M. Ehrlich, DNA methylation in cancer: too much, but also too little, Oncogene, vol.21, issue.35, pp.5400-5413, 2002.
DOI : 10.1038/sj.onc.1205651

P. Das and R. Singal, DNA Methylation and Cancer, Journal of Clinical Oncology, vol.22, issue.22, pp.4632-4642, 2004.
DOI : 10.1200/JCO.2004.07.151

P. Jones, S. Baylin, L. Schermelleh, A. Haemmer, F. Spada et al., The Epigenomics of Cancer Dynamics of Dnmt1 interaction with the replication machinery and its role in postreplicative maintenance of DNA methylation, Cell Nucleic Acids Res, vol.128, issue.35, pp.683-692, 2007.

E. Houseman, B. Christensen, M. Karagas, M. Wrensch, and H. Nelson, Copy number variation has little impact on bead-array-based measures of DNA methylation, Bioinformatics, vol.25, issue.16, pp.1999-2005, 2009.
DOI : 10.1093/bioinformatics/btp364

M. Lauss, M. Aine, G. Sjödahl, S. Veerla, and O. Patschan, DNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status, Epigenetics, vol.7, issue.8, pp.858-867, 2012.
DOI : 10.1186/1471-2164-11-145

G. Poage, B. Christensen, E. Houseman, M. Mcclean, and J. Wiencke, Genetic and Epigenetic Somatic Alterations in Head and Neck Squamous Cell Carcinomas Are Globally Coordinated but Not Locally Targeted, PLoS ONE, vol.5, issue.3, p.9651, 2010.
DOI : 10.1371/journal.pone.0009651.s003

B. Christensen, E. Houseman, G. Poage, J. Godleski, and R. Bueno, Integrated Profiling Reveals a Global Correlation between Epigenetic and Genetic Alterations in Mesothelioma, Cancer Research, vol.70, issue.14, pp.5686-5694, 2010.
DOI : 10.1158/0008-5472.CAN-10-0190

E. Fisher, R. Gregorio, B. Fisher, C. Redmond, and F. Vellios, The pathology of invasive breast cancerA Syllabus Derived from Findings of the National Surgical Adjuvant Breast Project (Protocol No. 4), Cancer, vol.36, issue.1, pp.1-85, 1975.
DOI : 10.1002/1097-0142(197507)36:1<1::AID-CNCR2820360102>3.0.CO;2-4

D. Weisenberger, . Van-den, D. Berg, F. Pan, B. Berman et al., Comprehensive DNA methylation analysis on the illumina infinium assay platform, 2008.

A. Balaton, E. Baviera, B. Galet, P. Vaury, and P. Vuong, Immunohistochemical evaluation of estrogen and progesterone receptors on paraffin sections of breast carcinomas. Practical thoughts based on the study of 368 cases, Arch Anat Cytol Pathol, vol.43, pp.93-100, 1995.

A. Balaton, J. Coindre, C. F. Ettore, F. Fiche, and M. , Recommandations for Human Epidermal Growth Factor Receptor 2 Testing in Breast CancerCollege of American Pathologists Clinical Practice Guideline Update, Ann Pathol, vol.16, pp.144-148, 1996.

A. Wolff, E. Hammond, D. Hicks, M. Dowsett, and L. Mcshane, Recommendations for Human Epidermal Growth Factor Receptor 2 Testing in Breast Cancer: American Society of Clinical Oncology/College of American Pathologists Clinical Practice Guideline Update, Journal of Clinical Oncology, vol.31, issue.31, pp.3997-4013, 2013.
DOI : 10.1200/JCO.2013.50.9984

C. Sabbah, G. Mazo, C. Paccard, F. Reyal, and P. Hupe, SMETHILLIUM: spatial normalization METHod for ILLumina InfinIUM HumanMethylation BeadChip, Bioinformatics, vol.27, issue.12, pp.1693-1698, 2011.
DOI : 10.1093/bioinformatics/btr187

Y. Benjamini and Y. Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, J R Stat Soc, vol.1, pp.289-300, 1995.

C. Chang and C. Lin, LIBSVM, ACM Transactions on Intelligent Systems and Technology, vol.2, issue.3, pp.1-27, 2011.
DOI : 10.1145/1961189.1961199

E. Kaplan and D. Meier, Nonparametric estimation from incomplete observation, J Am Statist, vol.58, pp.457-481, 1958.
DOI : 10.1007/978-1-4612-4380-9_25

D. Cox and D. Oakes, Analysis of Survival Data, 1984.

G. Cardillo and . Logrank, mathworks website Available: http://www.mathworks. com/matlabcentral/fileexchange/22317-logrank. Accessed, 2014.

G. Cardillo and . Kmplot, mathworks website Available: http://www.mathworks. com/matlabcentral/fileexchange/22293, 2014.