Common non-synonymous SNPs associated with breast cancer susceptibility: findings from the Breast Cancer Association Consortium.
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Julian Peto ;
WeiZheng;
SandraDeming-Halverson;
Martha JShrubsole;
JirongLong;
JennyChang-Claude;
AnjaRudolph;
PetraSeibold;
DieterFlesch-Janys;
RobertWinqvist;
KatriPylkäs;
ArjaJukkola-Vuorinen;
MerviGrip;
AngelaCox;
Simon SCross;
Malcolm WRReed;
Marjanka KSchmidt;
AnnegienBroeks;
StenCornelissen;
LindeBraaf;
DaeheeKang;
Ji-YeobChoi;
Sue KPark;
Dong-YoungNoh;
JacquesSimard;
MartineDumont;
Mark SGoldberg;
FranceLabrèche;
Peter AFasching;
AlexanderHein;
Arif BEkici;
Matthias WBeckmann;
PaoloRadice;
PaoloPeterlongo;
JacopoAzzollini;
MonicaBarile;
ElinorSawyer;
IanTomlinson;
MichaelKerin;
NicolaMiller;
John LHopper;
Daniel FSchmidt;
EnesMakalic;
Melissa CSouthey;
SooHwang Teo;
ChengHar Yip;
KavittaSivanandan;
Wan-TingTay;
Chen-YangShen;
Chia-NiHsiung;
Jyh-CherngYu;
Ming-FengHou;
PascalGuénel;
ThereseTruong;
MarieSanchez;
ClaireMulot;
WilliamBlot;
QiuyinCai;
HeliNevanlinna;
Taru AMuranen;
KristiinaAittomäki;
CarlBlomqvist;
Anna HWu;
Chiu-ChenTseng;
DavidVan Den Berg;
Daniel OStram;
NataliaBogdanova;
ThiloDörk;
KennethMuir;
ArtitayaLophatananon;
SarahStewart-Brown;
PornthepSiriwanarangsan;
ArtoMannermaa;
VesaKataja;
Veli-MattiKosma;
Jaana MHartikainen;
Xiao-OuShu;
WeiLu;
Yu-TangGao;
BenZhang;
Fergus JCouch;
Amanda EToland;
TNBCC;
DrakoulisYannoukakos;
SuleepornSangrajrang;
JamesMcKay;
XianshuWang;
Janet EOlson;
CelineVachon;
KristenPurrington;
GianlucaSeveri;
LauraBaglietto;
Christopher AHaiman;
Brian EHenderson;
FredrickSchumacher;
LoicLe Marchand;
PeterDevilee;
Robert AEMTollenaar;
CarolineSeynaeve;
KamilaCzene;
MikaelEriksson;
KeithHumphreys;
HatefDarabi;
ShahanaAhmed;
MitulShah;
Paul DPPharoah;
PerHall;
Graham GGiles;
JavierBenítez;
Alison MDunning;
GeorgiaChenevix-Trench;
Douglas FEaston;
(2014)
Common non-synonymous SNPs associated with breast cancer susceptibility: findings from the Breast Cancer Association Consortium.
Human molecular genetics, 23 (22).
pp. 6096-6111.
ISSN 0964-6906
DOI: 10.1093/hmg/ddu311
Candidate variant association studies have been largely unsuccessful in identifying common breast cancer susceptibility variants, although most studies have been underpowered to detect associations of a realistic magnitude. We assessed 41 common non-synonymous single-nucleotide polymorphisms (nsSNPs) for which evidence of association with breast cancer risk had been previously reported. Case-control data were combined from 38 studies of white European women (46 450 cases and 42 600 controls) and analyzed using unconditional logistic regression. Strong evidence of association was observed for three nsSNPs: ATXN7-K264R at 3p21 [rs1053338, per allele OR = 1.07, 95% confidence interval (CI) = 1.04-1.10, P = 2.9 × 10(-6)], AKAP9-M463I at 7q21 (rs6964587, OR = 1.05, 95% CI = 1.03-1.07, P = 1.7 × 10(-6)) and NEK10-L513S at 3p24 (rs10510592, OR = 1.10, 95% CI = 1.07-1.12, P = 5.1 × 10(-17)). The first two associations reached genome-wide statistical significance in a combined analysis of available data, including independent data from nine genome-wide association studies (GWASs): for ATXN7-K264R, OR = 1.07 (95% CI = 1.05-1.10, P = 1.0 × 10(-8)); for AKAP9-M463I, OR = 1.05 (95% CI = 1.04-1.07, P = 2.0 × 10(-10)). Further analysis of other common variants in these two regions suggested that intronic SNPs nearby are more strongly associated with disease risk. We have thus identified a novel susceptibility locus at 3p21, and confirmed previous suggestive evidence that rs6964587 at 7q21 is associated with risk. The third locus, rs10510592, is located in an established breast cancer susceptibility region; the association was substantially attenuated after adjustment for the known GWAS hit. Thus, each of the associated nsSNPs is likely to be a marker for another, non-coding, variant causally related to breast cancer risk. Further fine-mapping and functional studies are required to identify the underlying risk-modifying variants and the genes through which they act.
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- https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4204770 (OA Location)
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