A. Breast-cancer-study and . Group, Prevalence and penetrance of BRCA1 and BRCA2 mutations in a population-based series of breast cancer cases, Br. J. Cancer, vol.83, pp.1301-1308, 2000.

E. M. John, Prevalence of Pathogenic BRCA1 Mutation Carriers in 5 US Racial/Ethnic Groups, JAMA, vol.298, issue.24, pp.2869-2876, 2007.
DOI : 10.1001/jama.298.24.2869

K. E. Malone, Prevalence and Predictors of BRCA1 and BRCA2 Mutations in a Population-Based Study of Breast Cancer in White and Black American Women Ages 35 to 64 Years, Cancer Research, vol.66, issue.16, pp.8297-8308, 2006.
DOI : 10.1158/0008-5472.CAN-06-0503

F. J. Couch, K. L. Nathanson, and K. Offit, Two Decades After BRCA: Setting Paradigms in Personalized Cancer Care and Prevention, Science, vol.310, issue.31, pp.1466-1470, 2014.
DOI : 10.1001/jama.2013.276573

M. C. King, "The Race" to Clone BRCA1, Science, vol.6, issue.11, pp.1462-1465, 2014.
DOI : 10.1101/gr.6.11.1029

C. J. Lord and A. Ashworth, The DNA damage response and cancer therapy, Nature, vol.146, issue.7381, pp.287-294, 2012.
DOI : 10.1016/j.cell.2011.07.042

A. Venkitaraman, Cancer Suppression by the Chromosome Custodians, BRCA1 and BRCA2, Science, vol.41, issue.D1, pp.1470-1475, 2014.
DOI : 10.1093/nar/gks1094

H. Farmer, Targeting the DNA repair defect in BRCA mutant cells as a therapeutic strategy, Nature, vol.11, issue.7035, pp.917-921, 2005.
DOI : 10.1177/1087057103008003013

R. Prakash, Y. Zhang, W. Feng, and M. Jasin, Homologous Recombination and Human Health: The Roles of BRCA1, BRCA2, and Associated Proteins, Cold Spring Harbor Perspectives in Biology, vol.7, issue.4, p.16600, 2015.
DOI : 10.1101/cshperspect.a016600

H. E. Bryant, Specific killing of BRCA2-deficient tumours with inhibitors of poly(ADP-ribose) polymerase, Nature, vol.20, issue.7035, pp.913-917, 2005.
DOI : 10.1016/S0022-2836(03)00313-9

P. C. Fong, Mutation Carriers, New England Journal of Medicine, vol.361, issue.2, pp.123-134, 2009.
DOI : 10.1056/NEJMoa0900212

M. W. Audeh, Oral poly(ADP-ribose) polymerase inhibitor olaparib in patients with BRCA1 or BRCA2 mutations and recurrent ovarian cancer: a proof-of-concept trial, The Lancet, vol.376, issue.9737, pp.245-251, 2010.
DOI : 10.1016/S0140-6736(10)60893-8

A. Tutt, Oral poly(ADP-ribose) polymerase inhibitor olaparib in patients with BRCA1 or BRCA2 mutations and advanced breast cancer: a proof-of-concept trial, The Lancet, vol.376, issue.9737, pp.235-244, 2010.
DOI : 10.1016/S0140-6736(10)60892-6

J. Mateo, DNA-Repair Defects and Olaparib in Metastatic Prostate Cancer, New England Journal of Medicine, vol.373, issue.18, pp.1697-1708, 2015.
DOI : 10.1056/NEJMoa1506859
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5228595

J. Ledermann, Olaparib Maintenance Therapy in Platinum-Sensitive Relapsed Ovarian Cancer, New England Journal of Medicine, vol.366, issue.15, pp.1382-1392, 2012.
DOI : 10.1056/NEJMoa1105535

E. H. Lips, Quantitative copy number analysis by Multiplex Ligation-dependent Probe Amplification (MLPA) of BRCA1-associated breast cancer regions identifies BRCAness, Breast Cancer Research, vol.12, issue.Suppl 1, p.107, 2011.
DOI : 10.1186/bcr2478

I. Ruscito, BRCA1 gene promoter methylation status in high-grade serous ovarian cancer patients ??? A study of the tumour Bank ovarian cancer (TOC) and ovarian cancer diagnosis consortium (OVCAD), European Journal of Cancer, vol.50, issue.12, pp.2090-2098, 2014.
DOI : 10.1016/j.ejca.2014.05.001

A. A. Jazaeri, Gene Expression Profiles of BRCA1-Linked, BRCA2-Linked, and Sporadic Ovarian Cancers, CancerSpectrum Knowledge Environment, vol.94, issue.13, pp.990-1000, 2002.
DOI : 10.1093/jnci/94.13.990

M. J. Larsen, Classifications within Molecular Subtypes Enables Identification of BRCA1/BRCA2 Mutation Carriers by RNA Tumor Profiling, PLoS ONE, vol.13, issue.5, p.64268, 2013.
DOI : 10.1371/journal.pone.0064268.s017

G. Peng, Genome-wide transcriptome profiling of homologous recombination DNA repair, Nature Communications, vol.3, p.3361, 2014.
DOI : 10.1200/JCO.2005.03.2755

S. A. Joosse, Prediction of BRCA1-association in hereditary non-BRCA1/2 breast carcinomas with array-CGH, Breast Cancer Research and Treatment, vol.16, issue.3, pp.479-489, 2009.
DOI : 10.1002/ajmg.1320560305

M. A. Vollebergh, An aCGH classifier derived from BRCA1-mutated breast cancer and benefit of high-dose platinum-based chemotherapy in HER2-negative breast cancer patients, Annals of Oncology, vol.22, issue.7, pp.1561-1570, 2011.
DOI : 10.1093/annonc/mdq624

J. A. Watkins, S. Irshad, A. Grigoriadis, and A. N. Tutt, Genomic scars as biomarkers of homologous recombination deficiency and drug response in breast and ovarian cancers, Breast Cancer Research, vol.1, issue.suppl 3, p.211, 2014.
DOI : 10.1002/emmm.200900040

M. Graeser, A Marker of Homologous Recombination Predicts Pathologic Complete Response to Neoadjuvant Chemotherapy in Primary Breast Cancer, Clinical Cancer Research, vol.16, issue.24
DOI : 10.1158/1078-0432.CCR-10-1027

C. J. Lord and A. Ashworth, BRCAness revisited, Nature Reviews Cancer, vol.2, issue.2, pp.110-120, 2016.
DOI : 10.1158/2159-8290.CD-12-0095

D. R. Bentley, Accurate whole human genome sequencing using reversible terminator chemistry, Nature, vol.34, issue.7218, pp.53-59, 2008.
DOI : 10.1101/gr.8.3.175
URL : http://doi.org/10.1038/nature07517

S. Nik-zainal, Landscape of somatic mutations in 560 breast cancer whole-genome sequences, Nature, vol.14, issue.7605, pp.47-54, 2016.
DOI : 10.1093/bioinformatics/btq170
URL : https://hal.archives-ouvertes.fr/hal-01388447

S. Morganella, The topography of mutational processes in breast cancer genomes, Nature Communications, vol.8, p.11383, 2016.
DOI : 10.1371/journal.pgen.1003036

S. Nik-zainal, Mutational Processes Molding the Genomes of 21 Breast Cancers, Cell, vol.149, issue.5, pp.979-993, 2012.
DOI : 10.1016/j.cell.2012.04.024

S. Nik-zainal, The Life History of 21 Breast Cancers, Cell, vol.149, issue.5, pp.994-1007, 2012.
DOI : 10.1016/j.cell.2012.04.023

L. B. Alexandrov, Signatures of mutational processes in human cancer, Nature, vol.27, issue.7463, pp.415-421, 2013.
DOI : 10.1093/bioinformatics/btr354

N. Waddell, Whole genomes redefine the mutational landscape of pancreatic cancer, Nature, vol.16, issue.7540, pp.495-501, 2015.
DOI : 10.1158/1078-0432.CCR-10-1027

P. Bailey, Genomic analyses identify molecular subtypes of pancreatic cancer, Nature, vol.4, issue.7592, pp.47-52, 2016.
DOI : 10.1038/ncomms3612

A. M. Patch, Whole???genome characterization of chemoresistant ovarian cancer, Nature, vol.123, issue.7553, pp.489-494, 2015.
DOI : 10.1101/gr.129684.111

L. B. Alexandrov, S. Nik-zainal, H. C. Siu, S. Y. Leung, and M. R. Stratton, A mutational signature in gastric cancer suggests therapeutic strategies, Nature Communications, vol.46, p.8683, 2015.
DOI : 10.1038/ng.2891

O. A. Stefansson, Genomic and phenotypic analysis of BRCA2mutated breast cancers reveals co-occurring changes linked to progression, Breast Cancer Research, vol.361, issue.5, p.95, 2011.
DOI : 10.1056/NEJMoa0900212

L. R. Yates, Subclonal diversification of primary breast cancer revealed by multiregion sequencing, Nature Medicine, vol.3, issue.7, pp.751-759, 2015.
DOI : 10.1016/j.celrep.2012.12.008

A. A. Rodriguez, DNA repair signature is associated with anthracycline response in triple negative breast cancer patients, Breast Cancer Research and Treatment, vol.38, issue.5, pp.189-196, 2010.
DOI : 10.4161/cc.3.11.1211

P. O. Chappuis, A significant response to neoadjuvant chemotherapy in BRCA1/2 related breast cancer, Journal of Medical Genetics, vol.39, issue.8, pp.608-610, 2002.
DOI : 10.1136/jmg.39.8.608

M. S. Lee, Comprehensive Analysis of Missense Variations in the BRCT Domain of BRCA1 by Structural and Functional Assays, Cancer Research, vol.70, issue.12, pp.4880-4890, 2010.
DOI : 10.1158/0008-5472.CAN-09-4563

S. L. Edwards, Resistance to therapy caused by intragenic deletion in BRCA2, Nature, vol.86, issue.7182, pp.1111-1115, 2008.
DOI : 10.1038/nature06548

W. Sakai, Secondary mutations as a mechanism of cisplatin resistance in BRCA2-mutated cancers, Nature, vol.2, issue.7182, pp.1116-1120, 2008.
DOI : 10.1128/MCB.18.10.5952

W. Trust-sanger-institute and U. Hinxton, 2 Guy's and St Thomas' NHS Trust, London, UK. 3 Division of Oncology and Pathology, Oncology, issue.4

H. Li and R. Durbin, Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, vol.25, issue.14, pp.1754-1760, 2009.
DOI : 10.1093/bioinformatics/btp324
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2705234

K. Ye, M. H. Schulz, Q. Long, R. Apweiler, and Z. Ning, Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads, Bioinformatics, vol.25, issue.21, pp.2865-2871, 2009.
DOI : 10.1093/bioinformatics/btp394

D. R. Zerbino and E. Birney, Velvet: Algorithms for de novo short read assembly using de Bruijn graphs, Genome Research, vol.18, issue.5, pp.821-829, 2008.
DOI : 10.1101/gr.074492.107
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2336801

L. B. Alexandrov, S. Nik-zainal, D. C. Wedge, P. J. Campbell, and M. R. Stratton, Deciphering Signatures of Mutational Processes Operative in Human Cancer, Cell Reports, vol.3, issue.1, pp.246-259, 2013.
DOI : 10.1016/j.celrep.2012.12.008

L. B. Alexandrov, Clock-like mutational processes in human somatic cells, Nature Genetics, vol.39, issue.12, pp.1402-1407, 2015.
DOI : 10.2307/2349088

P. Van-loo, Allele-specific copy number analysis of tumors, Proc. Natl. Acad. Sci. USA, pp.16910-16915, 2010.
DOI : 10.1200/JCO.2008.18.1370

V. Abkevich, Patterns of genomic loss of heterozygosity predict homologous recombination repair defects in epithelial ovarian cancer, British Journal of Cancer, vol.474, issue.10, pp.1776-1782, 2012.
DOI : 10.1016/j.cancergencyto.2004.12.017

R. Natrajan, Characterization of the genomic features and expressed fusion genes in micropapillary carcinomas of the breast, The Journal of Pathology, vol.1, issue.5, pp.553-565, 2014.
DOI : 10.1158/2159-8290.CD-11-0107

R. Tibshirani, Regression shrinkage and selection via the lasso, J. R. Stat. Soc. Series B Stat. Methodol, vol.58, pp.267-288, 1996.
DOI : 10.1111/j.1467-9868.2011.00771.x