Table 2.

SNPs associated with breast cancer risk at P < 0.05 in single marker analyses

ChromosomePositionrs#AllelesPolyphen-2 scoreSIFT scoreAmino acid changeGeneAF.caseAF.controlPPconditionalORLow 95% CIUp 95% CI
35257572rs146217902A/G0.0960.12Arg->GlnEDEM10.00120.00004.09E−034.1E−031.67E+090.00inf
5917213rs200263887G/A00Ile->ValTRIP130.00530.00280.021.7E−021.921.113.32
556155651rs201579608A/G0.9970Arg->GlnMAP3K10.00010.00130.011.3E−020.110.010.91
557750547NAG/A0.0880.1Tyr->HisPLK20.00130.00290.043.4E−020.440.200.97
6151914357rs34563373A/G0.0730.1Arg->HisC6orf970.00060.00000.044.1E−021.67E+090.00inf
6152560708rs190673256T/C0.0010.78Arg->GlnSYNE10.00230.00080.033.7E−022.761.087.07
6152603091NAT/C0.0060.11Glu->LysSYNE10.00000.00060.054.9E−020.000.00inf
105937039rs143563006C/G0.2627140Val->LeuFBXO180.00610.01000.018.1E−030.600.410.88
1064005772rs3765004G/T0.1330.08Lys->ThrRTKN20.02070.01630.054.6E−021.281.001.64
10114286892rs184549091C/T0.9730.01Leu->ProVTI1A0.00490.00760.043.6E−020.630.410.98
10123843210rs141547215A/G0.9950Gly->ArgTACC20.02600.03240.021.9E−020.800.650.97
111491556NAT/CNA0.2Arg->GlnAC0911960.00100.00260.022.4E−020.380.160.90
1165408708rs3741379T/G0.0010.88Ala->SerSIPA10.02660.02140.054.2E−021.251.001.54
1165487550NAA/C0.9910.14Arg->LeuRNASEH2C0.00010.00100.044.0E−020.150.021.21
1165629960rs2298447T/C0.1560.03Leu->PheMUS810.00130.00290.043.8E−020.450.200.97
1165630970rs143145862A/G0.0920.04Arg->GlnMUS810.00040.00180.021.5E−020.240.070.84
1165636047rs200340088T/C0.9930.02Glu->LysEFEMP20.00120.00004.07E−034.0E−031.67E+090.00inf
1165639801rs200995432T/G0.9660Pro->ThrEFEMP20.00170.00030.016.2E−036.181.3827.62
1295603070NAA/T00.19Ser->CysFGD60.00000.00060.054.9E−020.000.00inf
1296288809rs140348782G/A0.9240.15Ser->ProCCDC380.00160.00320.054.8E−020.490.241.01
1296379914rs181887143T/C0.3460.08Arg->HisHAL0.00090.00240.032.5E−020.360.140.92
1332907359rs80358457C/A0.5610.06Thr->ProBRCA20.00060.00190.022.3E−020.300.100.90
1332930651rs80358978A/G0.9990Gly->SerBRCA20.00230.00012.18E−042.2E−0416.512.19124.50
1437132495NAG/A0.9850.28Asn->SerPAX90.00000.00060.054.6E−020.000.00inf
1491739003rs182423495A/GNA0.06Pro->LeuCCDC88C0.00060.00180.033.5E−020.320.100.97
1491763720rs142539336A/GNA0Arg->CysCCDC88C0.00620.00360.033.4E−021.701.052.76
1491780306NAG/CNA0Arg->SerCCDC88C0.00350.00140.021.4E−022.381.154.92
1653358202NAA/GNA0Gly->SerCHD90.00030.00130.044.4E−020.230.051.07
1653682940rs142349647T/C0.2420.03Arg->GlnRPGRIP1L0.00010.00130.011.4E−020.120.010.91
1681075049rs192089732T/C0.9920Pro->LeuATMIN0.00060.00000.044.1E−021.68E+090.00inf
1917317529rs186514880A/GNA0.13Val->IleMYO9B0.00140.00310.044.3E−020.470.220.99
1917373389NAT/C0.0061Arg->GlnUSHBP10.00070.00000.022.2E−021.69E+090.00inf
1917831801NAA/G0.0030.59Val->IleMAP1S0.00170.00040.021.6E−024.171.1714.77
1918546203rs145899718G/C0.0030.07Glu->GlnISYNA10.00120.00260.043.7E−020.430.190.99
1918779799rs117020142T/A0.9880.57Tyr->PheKLHL260.00060.00180.032.7E−020.310.100.96
1944118014NAT/CNA0.07Arg->CysSRRM50.00170.00060.043.8E−023.121.019.69
1944470165rs141927408T/C0.4160.01Arg->CysZNF2210.00000.00070.032.8E−020.000.00inf
2240417776rs141861984A/G0.0580.37Arg->GlnFAM83F0.00000.00060.054.8E−020.000.00inf

Abbreviation: inf, infinite.