Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer

Kyriaki Michailidou; Jonathan Beesley; Sara Lindstrom; Sander Canisius; Joe Dennis; Michael J Lush; Mel J Maranian; Manjeet K Bolla; Qin Wang; Mitul Shah; Barbara J Perkins; Kamila Czene; Mikael Eriksson; Hatef Darabi; Judith S Brand; Stig E Bojesen; Børge G Nordestgaard; Henrik Flyger; Sune F Nielsen; Nazneen Rahman; Clare Turnbull; Olivia Fletcher; Julian Peto; Lorna Gibson; Isabel dos-Santos-Silva; Jenny Chang-Claude; Dieter Flesch-Janys; Anja Rudolph; Ursula Eilber; Sabine Behrens; Heli Nevanlinna; Taru A Muranen; Kristiina Aittomäki; Carl Blomqvist; Sofia Khan; Kirsimari Aaltonen; Habibul Ahsan; Muhammad G Kibriya; Alice S Whittemore; Esther M John; Kathleen E Malone; Marilie D Gammon; Regina M Santella; Giske Ursin; Enes Makalic; Daniel F Schmidt; Graham Casey; David J Hunter; Susan M Gapstur; Mia M Gaudet; BOCS

doi:10.1038/ng.3242

Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer

Kyriaki Michailidou, Jonathan Beesley, Sara Lindstrom, Sander Canisius, Joe Dennis, Michael J Lush, Mel J Maranian, Manjeet K Bolla, Qin Wang, Mitul Shah, Barbara J Perkins, Kamila Czene, Mikael Eriksson, Hatef Darabi, Judith S Brand, Stig E Bojesen, Børge G Nordestgaard, Henrik Flyger, Sune F Nielsen, Nazneen RahmanClare Turnbull, Olivia Fletcher, Julian Peto, Lorna Gibson, Isabel dos-Santos-Silva, Jenny Chang-Claude, Dieter Flesch-Janys, Anja Rudolph, Ursula Eilber, Sabine Behrens, Heli Nevanlinna, Taru A Muranen, Kristiina Aittomäki, Carl Blomqvist, Sofia Khan, Kirsimari Aaltonen, Habibul Ahsan, Muhammad G Kibriya, Alice S Whittemore, Esther M John, Kathleen E Malone, Marilie D Gammon, Regina M Santella, Giske Ursin, Enes Makalic, Daniel F Schmidt, Graham Casey, David J Hunter, Susan M Gapstur, Mia M Gaudet, BOCS

Institut for Klinisk Medicin

333 Citationer (Scopus)

Abstract

Genome-wide association studies (GWAS) and large-scale replication studies have identified common variants in 79 loci associated with breast cancer, explaining ∼14% of the familial risk of the disease. To identify new susceptibility loci, we performed a meta-analysis of 11 GWAS, comprising 15,748 breast cancer cases and 18,084 controls together with 46,785 cases and 42,892 controls from 41 studies genotyped on a 211,155-marker custom array (iCOGS). Analyses were restricted to women of European ancestry. We generated genotypes for more than 11 million SNPs by imputation using the 1000 Genomes Project reference panel, and we identified 15 new loci associated with breast cancer at P < 5 × 10(-8). Combining association analysis with ChIP-seq chromatin binding data in mammary cell lines and ChIA-PET chromatin interaction data from ENCODE, we identified likely target genes in two regions: SETBP1 at 18q12.3 and RNF115 and PDZK1 at 1q21.1. One association appears to be driven by an amino acid substitution encoded in EXO1.

Originalsprog	Engelsk
Tidsskrift	Nature Genetics
Vol/bind	47
Udgave nummer	4
Sider (fra-til)	373-80 + 1 unpag.
Antal sider	9
ISSN	1061-4036
DOI	https://doi.org/10.1038/ng.3242
Status	Udgivet - 28 apr. 2015

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Michailidou, K., Beesley, J., Lindstrom, S., Canisius, S., Dennis, J., Lush, M. J., Maranian, M. J., Bolla, M. K., Wang, Q., Shah, M., Perkins, B. J., Czene, K., Eriksson, M., Darabi, H., Brand, J. S., Bojesen, S. E., Nordestgaard, B. G., Flyger, H., Nielsen, S. F., ... BOCS (2015). Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer. Nature Genetics, 47(4), 373-80 + 1 unpag. https://doi.org/10.1038/ng.3242

Michailidou, K, Beesley, J, Lindstrom, S, Canisius, S, Dennis, J, Lush, MJ, Maranian, MJ, Bolla, MK, Wang, Q, Shah, M, Perkins, BJ, Czene, K, Eriksson, M, Darabi, H, Brand, JS, Bojesen, SE , Nordestgaard, BG, Flyger, H, Nielsen, SF, Rahman, N, Turnbull, C, Fletcher, O, Peto, J, Gibson, L, dos-Santos-Silva, I, Chang-Claude, J, Flesch-Janys, D, Rudolph, A, Eilber, U, Behrens, S, Nevanlinna, H, Muranen, TA, Aittomäki, K, Blomqvist, C, Khan, S, Aaltonen, K, Ahsan, H, Kibriya, MG, Whittemore, AS, John, EM, Malone, KE, Gammon, MD, Santella, RM, Ursin, G, Makalic, E, Schmidt, DF, Casey, G, Hunter, DJ, Gapstur, SM, Gaudet, MM & BOCS 2015, 'Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer', Nature Genetics, bind 47, nr. 4, s. 373-80 + 1 unpag. https://doi.org/10.1038/ng.3242

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title = "Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer",

abstract = "Genome-wide association studies (GWAS) and large-scale replication studies have identified common variants in 79 loci associated with breast cancer, explaining ∼14% of the familial risk of the disease. To identify new susceptibility loci, we performed a meta-analysis of 11 GWAS, comprising 15,748 breast cancer cases and 18,084 controls together with 46,785 cases and 42,892 controls from 41 studies genotyped on a 211,155-marker custom array (iCOGS). Analyses were restricted to women of European ancestry. We generated genotypes for more than 11 million SNPs by imputation using the 1000 Genomes Project reference panel, and we identified 15 new loci associated with breast cancer at P < 5 × 10(-8). Combining association analysis with ChIP-seq chromatin binding data in mammary cell lines and ChIA-PET chromatin interaction data from ENCODE, we identified likely target genes in two regions: SETBP1 at 18q12.3 and RNF115 and PDZK1 at 1q21.1. One association appears to be driven by an amino acid substitution encoded in EXO1.",

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author = "Kyriaki Michailidou and Jonathan Beesley and Sara Lindstrom and Sander Canisius and Joe Dennis and Lush, {Michael J} and Maranian, {Mel J} and Bolla, {Manjeet K} and Qin Wang and Mitul Shah and Perkins, {Barbara J} and Kamila Czene and Mikael Eriksson and Hatef Darabi and Brand, {Judith S} and Bojesen, {Stig E} and Nordestgaard, {B{\o}rge G} and Henrik Flyger and Nielsen, {Sune F} and Nazneen Rahman and Clare Turnbull and Olivia Fletcher and Julian Peto and Lorna Gibson and Isabel dos-Santos-Silva and Jenny Chang-Claude and Dieter Flesch-Janys and Anja Rudolph and Ursula Eilber and Sabine Behrens and Heli Nevanlinna and Muranen, {Taru A} and Kristiina Aittom{\"a}ki and Carl Blomqvist and Sofia Khan and Kirsimari Aaltonen and Habibul Ahsan and Kibriya, {Muhammad G} and Whittemore, {Alice S} and John, {Esther M} and Malone, {Kathleen E} and Gammon, {Marilie D} and Santella, {Regina M} and Giske Ursin and Enes Makalic and Schmidt, {Daniel F} and Graham Casey and Hunter, {David J} and Gapstur, {Susan M} and Gaudet, {Mia M} and BOCS",

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doi = "10.1038/ng.3242",

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T1 - Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer

AU - Michailidou, Kyriaki

AU - Beesley, Jonathan

AU - Lindstrom, Sara

AU - Canisius, Sander

AU - Dennis, Joe

AU - Lush, Michael J

AU - Maranian, Mel J

AU - Bolla, Manjeet K

AU - Wang, Qin

AU - Shah, Mitul

AU - Perkins, Barbara J

AU - Czene, Kamila

AU - Eriksson, Mikael

AU - Darabi, Hatef

AU - Brand, Judith S

AU - Bojesen, Stig E

AU - Nordestgaard, Børge G

AU - Flyger, Henrik

AU - Nielsen, Sune F

AU - Rahman, Nazneen

AU - Turnbull, Clare

AU - Fletcher, Olivia

AU - Peto, Julian

AU - Gibson, Lorna

AU - dos-Santos-Silva, Isabel

AU - Chang-Claude, Jenny

AU - Flesch-Janys, Dieter

AU - Rudolph, Anja

AU - Eilber, Ursula

AU - Behrens, Sabine

AU - Nevanlinna, Heli

AU - Muranen, Taru A

AU - Aittomäki, Kristiina

AU - Blomqvist, Carl

AU - Khan, Sofia

AU - Aaltonen, Kirsimari

AU - Ahsan, Habibul

AU - Kibriya, Muhammad G

AU - Whittemore, Alice S

AU - John, Esther M

AU - Malone, Kathleen E

AU - Gammon, Marilie D

AU - Santella, Regina M

AU - Ursin, Giske

AU - Makalic, Enes

AU - Schmidt, Daniel F

AU - Casey, Graham

AU - Hunter, David J

AU - Gapstur, Susan M

AU - Gaudet, Mia M

AU - BOCS

PY - 2015/4/28

Y1 - 2015/4/28

N2 - Genome-wide association studies (GWAS) and large-scale replication studies have identified common variants in 79 loci associated with breast cancer, explaining ∼14% of the familial risk of the disease. To identify new susceptibility loci, we performed a meta-analysis of 11 GWAS, comprising 15,748 breast cancer cases and 18,084 controls together with 46,785 cases and 42,892 controls from 41 studies genotyped on a 211,155-marker custom array (iCOGS). Analyses were restricted to women of European ancestry. We generated genotypes for more than 11 million SNPs by imputation using the 1000 Genomes Project reference panel, and we identified 15 new loci associated with breast cancer at P < 5 × 10(-8). Combining association analysis with ChIP-seq chromatin binding data in mammary cell lines and ChIA-PET chromatin interaction data from ENCODE, we identified likely target genes in two regions: SETBP1 at 18q12.3 and RNF115 and PDZK1 at 1q21.1. One association appears to be driven by an amino acid substitution encoded in EXO1.

AB - Genome-wide association studies (GWAS) and large-scale replication studies have identified common variants in 79 loci associated with breast cancer, explaining ∼14% of the familial risk of the disease. To identify new susceptibility loci, we performed a meta-analysis of 11 GWAS, comprising 15,748 breast cancer cases and 18,084 controls together with 46,785 cases and 42,892 controls from 41 studies genotyped on a 211,155-marker custom array (iCOGS). Analyses were restricted to women of European ancestry. We generated genotypes for more than 11 million SNPs by imputation using the 1000 Genomes Project reference panel, and we identified 15 new loci associated with breast cancer at P < 5 × 10(-8). Combining association analysis with ChIP-seq chromatin binding data in mammary cell lines and ChIA-PET chromatin interaction data from ENCODE, we identified likely target genes in two regions: SETBP1 at 18q12.3 and RNF115 and PDZK1 at 1q21.1. One association appears to be driven by an amino acid substitution encoded in EXO1.

KW - Breast Neoplasms

KW - Case-Control Studies

KW - Cohort Studies

KW - Female

KW - Genetic Loci

KW - Genetic Predisposition to Disease

KW - Genome-Wide Association Study

KW - Humans

KW - Meta-Analysis as Topic

KW - Microarray Analysis

KW - Polymorphism, Single Nucleotide

U2 - 10.1038/ng.3242

DO - 10.1038/ng.3242

M3 - Letter

C2 - 25751625

SN - 1061-4036

VL - 47

SP - 373-80 + 1 unpag.

JO - Nature: New biology

JF - Nature: New biology

IS - 4

ER -

Genome-wide association analysis of more than 120,000 individuals identifies 15 new susceptibility loci for breast cancer

Abstract

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