Table 1.
MTAG-CES results of the independent and significant loci.
| MEGASTROKE CES | AF-2018 | MTAG-CES | MTAG-AF | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SNV | Locus | Gene | Novelty | Z | P | Z | P | Z | P | Z | P | PPA |
| rs17042098-A | 4q25 | PITX2 | (Malik et al.) [7] | 12.72 | 3.72 x 10−37 | 38.01 | 8.97 x 10−318 | 32.86 | 7.73 x 10−237 | 37.93 | 0 | 1.00 |
| rs2106261-T | 16q22.3 | ZFHX3 | (Malik et al.) [7] | 6.75 | 1.63 x 10−11 | 20.23 | 4.97 x 10−91 | 17.48 | 2.02 x 10−68 | 20.19 | 1.20 x 10−90 | 1.00 |
| rs11264280-T | 1q21.3 | ADAM15 | Novel | 2.49 | 1.28 x 10−02 | 18.97 | 3.07 x 10−79 | 14.22 | 7.17 x 10−46 | 18.44 | 5.88 x 10−76 | 0.65 |
| rs11598047-A | 10q24.33 | NEURL1 | Novel | −3.27 | 1.06 x 10−03 | −17.08 | 8.95 x 10−66 | −13.38 | 7.50 x 10−41 | −16.73 | 7.42 x 10−63 | 0.93 |
| rs3807989-A | 7q31.2 | CAV1 | Novel | −4.50 | 6.75 x 10−06 | −15.63 | 1.24 x 10−54 | −13.10 | 3.43 x 10−39 | −15.50 | 3.30 x 10−54 | 1.00 |
| rs680084-A | 1q24.2 | GORAB | Novel | −4.10 | 4.02 x 10−05 | −13.54 | 3.31 x 10−42 | −11.46 | 2.10 x 10−30 | −13.46 | 2.84 x 10−41 | 0.99 |
| rs883079-T | 12q24.21 | TBX5 | Novel | 3.55 | 3.95 x 10−04 | 13.26 | 2.84 x 10−40 | 10.96 | 5.97 x 10−28 | 13.12 | 2.60 x 10−39 | 0.97 |
| rs17171711-T | 5q31.2 | FAM13B | Novel | 3.79 | 1.56 x 10−04 | 12.48 | 1.95 x 10−35 | 10.57 | 4.04 x 10−26 | 12.41 | 2.35 x 10−35 | 0.99 |
| rs4385527-A | 9q22.32 | AOPEP | Novel | 3.92 | 8.56 x 10−05 | 12.03 | 6.16 x 10−33 | 10.34 | 4.69 x 10−25 | 11.99 | 3.89 x 10−33 | 0.95 |
| rs78249997-T | 10q22.2 | MYOZ1 | Novel | −3.82 | 1.37 x 10−04 | −12.08 | 8.75 x 10−34 | −10.32 | 5.80 x 10−25 | −12.03 | 2.45 x 10−33 | 0.98 |
| rs7172038-T | 15q24.1 | NEO1 | Novel | −2.73 | 6.43 x 10−03 | −12.58 | 4.78 x 10−36 | −10.04 | 1.02 x 10−23 | −12.37 | 3.76 x 10−35 | 0.74 |
| rs2738413-A | 14q23.2 | ESR2 | Novel | 2.97 | 3.03x10−03 | 11.61 | 2.55 x 10−31 | 9.52 | 1.67 x 10−21 | 11.47 | 1.80 x 10−30 | 0.85 |
| rs6891790-T | 5q35.1 | NKX2-5 | (Malik et al.) [7] | −4.97 | 6.67x10−07 | −9.59 | 4.53 x 10−22 | −9.29 | 1.57 x 10−20 | −9.80 | 1.16 x 10−22 | 1.00 |
| rs2857265-A | 2q31.2 | FKBP7 | Novel | 2.76 | 5.85 x 10−03 | 10.16 | 4.58 x 10−24 | 8.42 | 3.65 x 10−17 | 10.06 | 8.29 x 10−24 | 0.70 |
| rs10753933-T | 1q32.1 | PPFIA4 | Novel | 3.72 | 2.09 x 10−04 | 9.09 | 9.84 x 10−20 | 8.24 | 1.70 x 10−16 | 9.16 | 5.30 x 10−20 | 0.99 |
| rs74399915-T | 11q24.3 | C11orf45 | Novel | 3.38 | 7.20 x 10−04 | 9.05 | 1.23 x 10−19 | 8.03 | 1.01 x 10−15 | 9.08 | 1.11 x 10−19 | 0.92 |
| rs13191450-A | 6q22.31 | HSF2 | Novel | 2.93 | 3.51 x 10−03 | 8.88 | 9.97 x 10−19 | 7.65 | 1.95 x 10−14 | 8.86 | 7.96 x 10−19 | 0.81 |
| rs2834618-T | 21q22.12 | RUNX1 | Novel | 3.31 | 9.48 x 10−04 | 8.43 | 3.41x 10−17 | 7.56 | 3.96 x 10−14 | 8.47 | 2.37 x 10−17 | 0.96 |
| rs56181519-T | 2q31.1 | WIPF1 | Novel | −2.73 | 6.31 x 10−03 | −8.60 | 6.46 x 10−18 | −7.35 | 1.98 x 10−13 | −8.56 | 1.11 x 10−17 | 0.82 |
| rs12908004-A | 15q25.1 | ARNT2 | Novel | −3.28 | 1.03 x 10−03 | −8.13 | 4.12 x 10−16 | −7.35 | 2.03 x 10−13 | −8.19 | 2.65 x 10−16 | 0.96 |
| rs3176326-A | 6p21.2 | CDKN1A | Novel | −3.98 | 6.66 x 10−05 | −7.36 | 1.42 x 10−13 | −7.23 | 5.01 x 10−13 | −7.54 | 4.59 x 10−14 | 1.00 |
| rs6747542-T | 2p13.3 | GMCL1 | Novel | 2.61 | 8.86 x 10−03 | 8.27 | 1.10 x 10−16 | 7.06 | 1.63 x 10−12 | 8.23 | 1.82 x 10−16 | 0.75 |
| rs337705-T | 5q22.3 | KCNN2 | Novel | −2.56 | 1.04 x 10−02 | −8.29 | 1.63 x 10−16 | −7.05 | 1.77 x 10−12 | −8.25 | 1.57 x 10−16 | 0.72 |
| rs41292535-A | 1p32.2 | EPS15 | Novel | 3.81 | 1.39 x 10−04 | 7.16 | 7.42 x 10−13 | 6.99 | 2.73 x 10−12 | 7.33 | 2.34 x 10−13 | 0.96 |
| rs140185678-A | 16p13.3 | RPL3L | Novel | 2.92 | 3.54 x 10−03 | 7.61 | 2.43 x 10−14 | 6.79 | 1.13 x 10−11 | 7.64 | 2.13 x 10−14 | 0.89 |
| rs76774446-A | 17q21.32 | GOSR2 | Novel | 4.38 | 1.20 x 10−05 | 6.15 | 8.72 x10−10 | 6.63 | 3.32 x 10−11 | 6.43 | 1.25 x 10−10 | 0.99 |
| rs55754224-T | 4q26 | CAMK2D | Novel | 2.80 | 5.05 x 10−03 | 7.39 | 2.15 x 10−13 | 6.57 | 4.92 x 10−11 | 7.41 | 1.22 x 10−13 | 0.80 |
| rs79187193-A | 1q21.2 | GJA5 | Novel | −2.37 | 1.78 x 10−02 | −7.59 | 3.15 x 10−14 | −6.47 | 9.79 x 10−11 | −7.56 | 4.08 x 10−14 | 0.71 |
| rs12260801-T | 10q25.2 | PDCD4 | Novel | 4.56 | 5.22 x 10−06 | 5.53 | 2.94 x 10−08 | 6.31 | 2.79 x 10−10 | 5.86 | 4.62 x 10−09 | 1.00 |
| rs2269001-A | 7q36.1 | KCNH2 | Novel | −2.89 | 3.94 x 10−03 | −6.63 | 4.01 x 10−11 | −6.11 | 1.00 x 10−09 | −6.70 | 2.06 x 10−11 | 0.73 |
| rs6598541-A | 15q26.3 | IGF1R | Novel | 2.69 | 7.17 x 10−03 | 6.35 | 2.22 x 10−10 | 5.81 | 6.21 x 10−09 | 6.41 | 1.48 x 10−10 | 0.72 |
| rs11125871-T | 2p15 | C2orf74 | Novel | −3.24 | 1.17 x 10−03 | −5.79 | 6.42 x 10−09 | −5.75 | 9.19 x 10−09 | −5.95 | 2.71 x 10−09 | 0.87 |
| rs635634-T | 9q34.2 | ABO | (Williams et al.) [10]; Malik et al. [7] | 5.10 | 3.31 x 10−07 | 4.20 | 2.74 x 10−05 | 5.72 | 1.04 x 10−08 | 4.66 | 3.13 x 10−06 | 1.00 |
| rs10272350-A | 7q11.23 | TMEM60 | Novel | 4.53 | 6.13 x 10−06 | 4.62 | 3.41 x 10−06 | 5.68 | 1.32 x 10−08 | 4.99 | 5.93 x 10−07 | 0.99 |
| rs116600817-A | 17p13.1 | TNFSF12 | Novel | 2.88 | 3.92 x 10−03 | 6.00 | 2.45 x 10−09 | 5.68 | 1.33 x 10−08 | 6.10 | 1.07 x 10−09 | 0.85 |
| rs13010313-T | 2q22.3 | ZEB2 | Novel | 3.52 | 4.21 x 10−04 | 5.45 | 5.72 x 10−08 | 5.67 | 1.41 x 10−08 | 5.65 | 1.57 x 10−08 | 0.90 |
| rs2885697-T | 1p34.2 | SCMH1 | Novel | −2.54 | 1.09 x 10−02 | −6.27 | 2.88 x 10−10 | −5.67 | 1.41 x 10−08 | −6.32 | 2.70 x 10−10 | 0.72 |
| rs11057583-A | 12q24.31 | NCOR2 | Novel | 3.82 | 1.35 x 10−04 | 5.19 | 2.10 x 10−07 | 5.67 | 1.46 x 10−08 | 5.45 | 5.13 x 10−08 | 0.74 |
| rs11782313-T | 8q24.3 | PTK2 | Novel | −3.05 | 2.34 x 10−03 | −5.81 | 5.71 x 10−09 | −5.64 | 1.65 x 10−08 | −5.94 | 2.94 x 10−09 | 0.78 |
| rs12211255-A | 6q14.1 | FILIP1 | Novel | 3.42 | 6.24 x 10−04 | 5.44 | 5.06 x 10−08 | 5.61 | 2.06 x 10−08 | 5.63 | 1.78 x 10−08 | 0.96 |
| rs1898096-A | 10q22.3 | LRMDA | Novel | −2.64 | 8.30 x 10−03 | −6.08 | 1.39 x 10−09 | −5.60 | 2.13 x 10−08 | −6.15 | 7.96 x 10−10 | 1.00 |
| rs11099098-T | 4q21.21 | FGF5 | Novel | 2.77 | 5.67 x1 0−03 | 5.94 | 2.96 x 10−09 | 5.58 | 2.38 x 10−08 | 6.03 | 1.62 x 10−09 | 0.78 |
| rs55985730-T | 7q32.1 | CALU | Novel | −2.84 | 4.47 x 10−03 | −5.82 | 5.24 x 10−09 | −5.54 | 3.06 x 10−08 | −5.92 | 3.19 x 10−09 | 0.87 |
| rs3746471-A | 20q11.23 | KIAA1755 | Novel | 3.56 | 3.58 x 10−04 | 5.18 | 2.30 x 10−07 | 5.51 | 3.50 x 10−08 | 5.40 | 6.59 x 10−08 | 0.96 |
SNV, Index Single Nucleotide Variant and assessed allele; Z, Z-score; P, P-value. Loci highlighted in bold are the ones not previously associated with AF. PPA, posterior probability of model 3 of GWAS-PW.