A Genome-wide Association Study of Early-Onset Breast Cancer Identifies PFKM as a Novel Breast Cancer Gene and Supports a Common Genetic Spectrum for Breast Cancer at Any Age

H Ahsan, J Halpern, MG Kibriya, BL Pierce, L Tong, E Gamazon, V McGuire, A Felberg, JX Shi, F Jasmine, Suchandana Roy, R Brutus, M Argos, S Melkonian, J Chang-Claude, I Andrulis, JL Hopper, EM John, K Malone, G UrsinMD Gammon, DC Thomas, D Seminara, G Casey, JA Knight, MC Southey, GG Giles, RM Santella, E Lee, D Conti, D Duggan, S Gallinger, R Haile, M Jenkins, NM Lindor, P Newcomb, K Michailidou, C Apicella, DJ Park, J Peto, O Fletcher, ID Silva, M Lathrop, DJ Hunter, SJ Chanock, A Meindl, RK Schmutzler, B Muller-Myhsok, M Lochmann, L Beckmann, R Hein, E Makalic, DF Schmidt, QM Bui, J Stone, D Flesch-Janys, N Dahmen, H Nevanlinna, K Aittomaki, C Blomqvist, P Hall, K Czene, A Irwanto, JJ Liu, N Rahman, C Turnbull, AM Dunning, P Pharoah, Q Waisfisz, H Meijers-Heijboer, André Uitterlinden, Fernando Rivadeneira, D Nicolae, DF Easton, NJ Cox, AS Whittemore

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Abstract

Early-onset breast cancer (EOBC) causes substantial loss of life and productivity, creating a major burden among women worldwide. We analyzed 1,265,548 Hapmap3 single-nucleotide polymorphisms (SNP) among a discovery set of 3,523 EOBC incident cases and 2,702 population control women ages <= 51 years. The SNPs with smallest P values were examined in a replication set of 3,470EOBC cases and 5,475 control women. We also tested EOBC association with 19,684 genes by annotating each gene with putative functional SNPs, and then combining their P values to obtain a gene-based P value. We examined the gene with smallest P value for replication in 1,145 breast cancer cases and 1,142 control women. The combined discovery and replication sets identified 72 new SNPs associated with EOBC(P < 4 x 10(-8)) located in six genomic regions previously reported to contain SNPs associated largely with later-onset breast cancer (LOBC). SNP rs2229882 and 10 other SNPs on chromosome 5q11.2 remained associated (P < 6 x 10(-4)) after adjustment for the strongest published SNPs in the region. Thirty-two of the 82 currently known LOBC SNPs were associated with EOBC (P < 0.05). Low power is likely responsible for the remaining 50 unassociated known LOBC SNPs. The gene-based analysis identified an association between breast cancer and the phosphofructokinase-muscle (PFKM) gene on chromosome 12q13.11 that met the genome-wide gene-based threshold of 2.5 x 10(-6). In conclusion, EOBC and LOBC seem to have similar genetic etiologies; the 5q11.2 region may contain multiple distinct breast cancer loci; and the PFKM gene region is worthy of further investigation. These findings should enhance our understanding of the etiology of breast cancer. (C)2014 AACR.
Original languageUndefined/Unknown
Pages (from-to)658-669
Number of pages12
JournalCancer Epidemiology Biomarkers & Prevention
Volume23
Issue number4
DOIs
Publication statusPublished - 2014

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