Table 2. GWAS results.
Discovery phase |
Replication phase |
Combined phase |
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Protein | H* | N | SNPs | P (best) | % Var Expl† | H* | N | SNPs | P (best) | % Var Expl† | H* | SNPs | P (best) | % Var Expl† | λ‡ |
IL-6RA | 0.66 | 653 | 22 | 1.1 × 10−40 | 27.3 | 0.50 | 317 | 10 | 1.1 × 10−20 | 27.4 | 0.68 | 22 | 4.4 × 10−58 | 26.6 | 1.06 |
CXCL10 | 0.47 | 641 | 24 | 1.4 × 10−31 | 21.3 | 0.39 | 311 | 1 | 2.3 × 10−06 | 7.2 | 0.46 | 16 | 6.8 × 10−37 | 16.9 | 0.94 |
CCL24 | 0.71 | 653 | 17 | 2.3 × 10−28 | 18.7 | 0.79 | 317 | 4 | 5.3 × 10−11 | 13.6 | 0.78 | 30 | 2.0 × 10−36 | 16.4 | 1.09 |
MIC-A | 0.40 | 363 | 25 | 2.1 × 10−17 | 19.8 | 0.54 | 174 | 14 | 3.7 × 10−04 | 7.3 | 0.52 | 19 | 5.3 × 10−16 | 12.2 | 1.25 |
CD40-L | 0.27 | 640 | 14 | 1.3 × 10−16 | 10.7 | 0.39 | 315 | 13 | 2.1 × 10−10 | 12.8 | 0.33 | 22 | 1.1 × 10−25 | 11.5 | 1.13 |
CXCL5 | 0.41 | 653 | 8 | 7.7 × 10−16 | 9.9 | 0.62 | 317 | 5 | 1.5 × 10−10 | 12.9 | 0.51 | 8 | 4.3 × 10−26 | 11.5 | 1.06 |
hK11 | 0.33 | 628 | 5 | 3.7 × 10−15 | 9.8 | 0.08 | 310 | 5 | 4.3 × 10−04 | 3.4 | 0.24 | 15 | 5.3 × 10−18 | 7.9 | 0.98 |
Ep-CAM | 0.54 | 653 | 18 | 2.1 × 10−14 | 5.2 | 0.50 | 317 | 8 | 1.4 × 10−09 | 11.6 | 0.57 | 24 | 6.7 × 10−16 | 6.7 | 0.97 |
IL-17RB | 0.51 | 415 | 1 | 4.7 × 10−13 | 12.6 | 0.30 | 199 | 1 | 1.1 × 10−07 | 14.2 | 0.48 | 2 | 1.7 × 10−18 | 12.5 | 0.96 |
IL-12B | 0.38 | 652 | 1 | 4.7 × 10−12 | 7.3 | 0.64 | 317 | 1 | 1.3 × 10−06 | 7.4 | 0.43 | 4 | 9.0 × 10−17 | 7.1 | 0.93 |
VEGF-D | 0.29 | 652 | 21 | 8.7 × 10−10 | 5.8 | 0.39 | 317 | 21 | 6.9 × 10−08 | 8.8 | 0.36 | 36 | 1.1 × 10−15 | 6.6 | 1.01 |
E-selectin | 0.44 | 639 | 4 | 8.9 × 10−10 | 5.7 | 0.70 | 306 | 4 | 1.3 × 10−08 | 10.6 | 0.56 | 6 | 5.0 × 10−16 | 7.0 | 1.01 |
MIA | 0.25 | 648 | 4 | 1.6 × 10−09 | 5.6 | 0.55 | 316 | 4 | 2.0 × 10−09 | 11.4 | 0.37 | 7 | 6.8 × 10−17 | 7.2 | 1.05 |
MPO | 0.43 | 646 | 1 | 3.8 × 10−09 | 0.22 | 317 | 0 | 9.0 × 10−01 | 0.39 | 0 | 6.1 × 10−07 | 1.05 | |||
CCL19 | 0.32 | 653 | 10 | 1.3 × 10−08 | 5.0 | 0.33 | 317 | 10 | 2.0 × 10−06 | 7.1 | 0.32 | 15 | 2.6 × 10−13 | 5.5 | 0.92 |
GWAS, genome-wide association study; SNP, single-nulecotide polymorphism; Var Expl, variance explained.
P-values were calculated from 1df Wald statistics χ2-values.
*Heritability estimate.
†Fraction of variance explained in the adjusted and transformed phenotype by the top-ranking SNP (SNP with lowest P-value in the combined analysis).
‡Estimation of the inflation factor for the resulting distribution of P-values.