SNP (minor/major alleles), chromosome position (bp) | N | MAF | PMH | PFDR | OR (95% CI) | |
---|---|---|---|---|---|---|
rs1234314 (G/C), 171444015 | Controls | 2920 | 0.41 | |||
SSc | 2856 | 0.44 | 0.03*† | – | 1.15 (1.02 to 1.31) | |
lcSSc | 1608 | 0.46 | 0.003*‡ | – | 1.22 (1.07 to 1.38) | |
dcSSc | 724 | 0.42 | 0.75§ | 0.84 | 1.02 (0.91 to 1.15) | |
ACA+ | 828 | 0.46 | 2.51E-04¶ | 0.001 | 1.23 (1.10 to 1.37) | |
ATA+ | 519 | 0.42 | 0.23** | 0.43 | 1.08 (0.95 to 1.24) | |
rs844644 (A/C), 171476118 | Controls | 2946 | 0.47 | |||
SSc | 2912 | 0.45 | 0.049† | 0.07 | 0.93 (0.86 to 1.00) | |
lcSSc | 1653 | 0.45 | 0.03‡ | 0.04 | 0.91 (0.83 to 0.99) | |
dcSSc | 743 | 0.46 | 0.84§ | 0.84 | 0.99 (0.88 to 1.11) | |
ACA+ | 856 | 0.44 | 0.049¶ | 0.049 | 0.90 (0.80 to 1.00) | |
ATA+ | 533 | 0.46 | 0.33** | 0.43 | 0.94 (0.82 to 1.07) | |
rs844648 (A/G), 171490486 | Controls | 2977 | 0.43 | |||
SSc | 2940 | 0.44 | 0.07† | 0.07 | 1.07 (1.00 to 1.15) | |
lcSSc | 1673 | 0.45 | 0.04‡ | 0.04 | 1.1 (1.01 to 1.20) | |
dcSSc | 742 | 0.42 | 0.69§ | 0.84 | 0.98 (0.87 to 1.10) | |
ACA+ | 860 | 0.45 | 0.04¶ | 0.049 | 1.12 (1.01 to 1.25) | |
ATA+ | 529 | 0.42 | 0.74** | 0.74 | 1.02 (0.89 to 1.17) | |
rs12039904 (T/C), 171478896 | Controls | 2991 | 0.23 | |||
SSc | 2894 | 0.26 | 1.53E-04† | 6.12E-04 | 1.18 (1.08 to 1.29) | |
lcSSc | 1639 | 0.26 | 2.81E-04‡ | 5.61E-04 | 1.20 (1.09 to 1.33) | |
dcSSc | 735 | 0.24 | 0.3§ | 0.84 | 1.07 (0.94 to 1.23) | |
ACA+ | 840 | 0.26 | 2.09E-03¶ | 4.17E-03 | 1.22 (1.07 to 1.38) | |
ATA+ | 523 | 0.24 | 0.15** | 0.43 | 1.12 (0.96 to 1.31) |
Controls are used as reference for all comparisons.
↵* DerSimonian–Laird random effects model p value.
↵† Breslow–Day rs1234314 p=0.01; rs844644 p=0.23; rs844648 p=0.52; rs12039904 p=0.50.
↵‡ Breslow–Day rs1234314 p=0.08; rs844644 p=0.52; rs844648 p=0.33; rs12039904 p=0.48.
↵§ Breslow–Day rs1234314 p=0.61; rs844644 p=0.49; rs844648 p=1.00; rs12039904 p=0.38.
↵¶ Breslow–Day rs1234314 p=0.29; rs844644 p=0.79; rs844648 p=0.94; rs12039904 p=0.74.
↵** Breslow–Day rs1234314 p=0.41; rs844644 p=0.73; rs844648 p=0.71; rs12039904 p=0.56.
ACA, anti-centromere antibodies; ATA, anti-topoisomerase antibodies; chromosome position, position in chromosome 1; dcSSc, diffuse cutaneous systemic sclerosis; lcSSc, limited cutaneous systemic sclerosis; MAF, minor allele frequency; PFDR, corrected p value using Benjamini and Hochberg False Discovery Rate; PMH, allelic Mantel–Haenszel fixed effects model p value; SSc, systemic sclerosis.