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Fine-mapping of the 1p11.2 breast cancer susceptibility locus

  • Hisani N. Horne
  • , Charles C. Chung
  • , Han Zhang
  • , Kai Yu
  • , Ludmila Prokunina-Olsson
  • , Kyriaki Michailidou
  • , Manjeet K. Bolla
  • , Qin Wang
  • , Joe Dennis
  • , John L. Hopper
  • , Melissa C. Southey
  • , Marjanka K. Schmidt
  • , Annegien Broeks
  • , Kenneth Muir
  • , Artitaya Lophatananon
  • , Peter A. Fasching
  • , Matthias W. Beckmann
  • , Olivia Fletcher
  • , Nichola Johnson
  • , Elinor J. Sawyer
  • Ian Tomlinson, Barbara Burwinkel, Frederik Marme, Pascal Guénel, Thérèse Truong, Stig E. Bojesen, Henrik Flyger, Javier Benitez, Anna González-Neira, Hoda Anton-Culver, Susan L. Neuhausen, Hermann Brenner, Volker Arndt, Alfons Meindl, Rita K. Schmutzler, Hiltrud Brauch, Ute Hamann, Heli Nevanlinna, Sofia Khan, Keitaro Matsuo, Hiroji Iwata, Thilo Dörk, Natalia V. Bogdanova, Annika Lindblom, Sara Margolin, Arto Mannermaa, Veli Matti Kosma, Georgia Chenevix-Trench, Anna H. Wu, David Ven Den Berg, Ann Smeets, Hui Zhao, Jenny Chang-Claude, Anja Rudolph, Paolo Radice, Monica Barile, Fergus J. Couch, Celine Vachon, Graham G. Giles, Roger L. Milne, Christopher A. Haiman, Loic Le Marchand, Mark S. Goldberg, Soo H. Teo, Nur A.M. Taib, Vessela Kristensen, Anne Lise Borresen-Dale, Wei Zheng, Martha Shrubsole, Robert Winqvist, Arja Jukkola-Vuorinen, Irene L. Andrulis, Julia A. Knight, Peter Devilee, Caroline Seynaeve, Montserrat García-Closas, Kamila Czene, Hatef Darabi, Antoinette Hollestelle, John W.M. Martens, Jingmei Li, Wei Lu, Xiao Ou Shu, Angela Cox, Simon S. Cross, William Blot, Qiuyin Cai, Mitul Shah, Craig Luccarini, Caroline Baynes, Patricia Harrington, Daehee Kang, Ji Yeob Choi, Mikael Hartman, Kee Seng Chia, Maria Kabisch, Diana Torres, Anna Jakubowska, Jan Lubinski, Suleeporn Sangrajrang, Paul Brennan, Susan Slager, Drakoulis Yannoukakos, Chen Yang Shen, Ming Feng Hou, Anthony Swerdlow, Nick Orr, Jacques Simard, Per Hall, Paul D.P. Pharoah, Douglas F. Easton, Stephen J. Chanock, Alison M. Dunning, Jonine D. Figueroa
  • National Cancer Institute (NCI)
  • FDA
  • University of Cambridge
  • University of Melbourne
  • Antoni van Leeuwenhoek Hospital
  • University of Warwick
  • University of Manchester
  • Friedrich-Alexander University Erlangen-Nürnberg
  • University of California at Los Angeles
  • Institute of Cancer Research
  • Guy’s Hospital
  • University of Oxford
  • Heidelberg University 
  • German Cancer Research Center
  • Occupational and Social Determinants of Health
  • APHP – Paris Saclay University
  • Copenhagen University Hospital – Herlev and Gentofte
  • University of Copenhagen
  • Centro de Investigación en Red de Enfermedades Raras
  • Centre for Biomedical Research on Rare Diseases (CIBERER)
  • University of California, Irvine
  • City of Hope National Med Center
  • Technical University of Munich
  • University of Cologne
  • Dr. Margarete Fischer-Bosch-Institute of Clinical Pharmacology
  • University of Tübingen
  • Helsinki University Hospital
  • Kyushu University
  • Aichi Cancer Center Hospital and Research Institute
  • Hannover Medical School
  • Karolinska Institutet
  • University of Eastern Finland
  • Queensland Institute of Medical Research
  • Keck School of Medicine of USC
  • University Hospitals Leuven
  • Vesalius Research Center
  • KU Leuven
  • University of Hamburg
  • IRCCS Fondazione Istituto Nazionale per lo studio e la cura dei tumori - Milano
  • European Institute of Oncology
  • Mayo Clinic Rochester, MN
  • Cancer Council Victoria
  • University of Hawaii Cancer Center
  • McGill University
  • McGill University Health Centre, Royal Victoria Hospital
  • Sime Darby Medical Centre
  • University of Malaya
  • University of Oslo
  • Vanderbilt University
  • University of Oulu
  • Northern Finland Laboratory Centre NordLab
  • Oulu University Hospital
  • University of Toronto
  • Leiden University
  • Erasmus MC Cancer Institute
  • Shanghai Center for Disease Control and Prevention
  • University of Sheffield
  • International Epidemiology Institute
  • Seoul National University
  • National University of Singapore
  • National University Health System
  • Pomeranian Medical University in Szczecin
  • The National Cancer Institute
  • International Agency for Research on Cancer
  • Demokritos National Centre for Scientific Research
  • China Medical University Taichung
  • Academia Sinica - Institute of Biomedical Sciences
  • Kaohsiung Medical University Chung-Ho Memorial Hospital
  • Research Center
  • University of Edinburgh

Research output: Contribution to journalArticlepeer-review

11 Scopus citations

Abstract

The Cancer Genetic Markers of Susceptibility genome-wide association study (GWAS) originally identified a single nucleotide polymorphism (SNP) rs11249433 at 1p11.2 associated with breast cancer risk. To fine-map this locus, we genotyped 92 SNPs in a 900kb region (120,505,799-121,481,132) flanking rs11249433 in 45,276 breast cancer cases and 48,998 controls of European, Asian and African ancestry from 50 studies in the Breast Cancer Association Consortium. Genotyping was done using iCOGS, a custom-built array. Due to the complicated nature of the region on chr1p11.2:120,300,000-120,505,798, that lies near the centromere and contains seven duplicated genomic segments, we restricted analyses to 429 SNPs excluding the duplicated regions (42 genotyped and 387 imputed). Perallelic associations with breast cancer risk were estimated using logistic regression models adjusting for study and ancestry-specific principal components. The strongest association observed was with the original identified index SNP rs11249433 (minor allele frequency (MAF) 0.402; per-allele odds ratio (OR) = 1.10, 95% confidence interval (CI) 1.08-1.13, P = 1.49 x 10-21). The association for rs11249433 was limited to ER-positive breast cancers (test for heterogeneity P<8.41 x 10-5). Additional analyses by other tumor characteristics showed stronger associations with moderately/well differentiated tumors and tumors of lobular histology. Although no significant eQTL associations were observed, in silico analyses showed that rs11249433 was located in a region that is likely a weak enhancer/promoter. Fine-mapping analysis of the 1p11.2 breast cancer susceptibility locus confirms this region to be limited to risk to cancers that are ER-positive.

Original languageEnglish
Article numbere0160316
JournalPLoS ONE
Volume11
Issue number8
DOIs
StatePublished - Aug 2016

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

  1. SDG 3 - Good Health and Well-being
    SDG 3 Good Health and Well-being

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