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Table 6 Semi-exhaustive search among SNP pairs containing a GWAS-identified SNP

From: Filter-free exhaustive odds ratio-based genome-wide interaction approach pinpoints evidence for interaction in the HLA region in psoriasis

GWAS-identified SNP Highest-scoring interactor with GWAS-identified SNP
FORCE u(I OR ) PLINK FastEpistasis Z-score
rs number Chromosomal location Risk allele OR Single association p-value rs number Chromosomal location u(I OR ) Empirical p-value Exact p-value a rs number Chromosomal location Exact p-value
rs10484554 6p21.33 4.66 4.0E-214 rs4151664 6p21.33 2.97 <10E-06 7.86E-10 rs28615950 6p21.3 2.12E-14
rs2546890 5q33.3 1.54 1.0E-20 rs7525345 1p31.1 2.53 7.10E-04 2.17E-06 rs4796093 17q12 1.24E-06
rs6701216 1q21 1.45 6.2E-05 rs2156892 22q11.22 2.5 <10E-06 1.30E-13 rs10853580 18q21.1 4.99E-07
rs4112788 1q21.3 1.41 6.5E-09 No pair meeting all inclusion criteria rs4459983 4q21.1 3.35E-08
rs7993214 13q14.11 1.41 2.0E-06 No pair meeting all inclusion criteria rs10800559 1q23.3 4.04E-08
rs3213094 5q33.3 1.39 5.0E-11 No pair meeting all inclusion criteria rs10512686 5p13.1 8.12E-06
rs17716942 2q24 1.29 1.1E-13 rs16928722 10q22.1 2.69 4.10E-06 2.78E-06 rs2553680 8q13.2 5.67E-07
rs20541 5q31.1 1.27 5.0E-15 No pair meeting all inclusion criteria rs17171818 5q31.2 5.63E-07
rs240993 6q21 1.25 5.3E-20 rs4727157 7q21.12 2.78 <10E-06 1.88E-20 rs2877327 22q12.1 1.26E-07
rs4795067 17q11 1.19 4.0E-11 No pair meeting all inclusion criteria rs3819847 3q27.3 4.59E-07
rs8016947 14q13 1.19 1.5E-11 No pair meeting all inclusion criteria rs11071746 15q22.31 1.58E-08
rs610604 6q23 1.19 7.0E-07 rs17585537 3p26.2 2.69 <10E-06 6.47E-19 rs4794888 17q11.1 1.11E-06
rs12580100 12q13.2 1.17 1.0E-06 rs7565742 2q31.2 3.39 <10E-06 6.80E-20 rs2992154 13q21.31 2.07E-06
rs4649203 1p36 1.13 6.8E-08 No pair meeting all inclusion criteria rs7661684 4q28.1 1.70E-06
rs2201841 1p31.3 1.13 3.0E-08 No pair meeting all inclusion criteria rs12783252 10q26.11 3.79E-06
rs27524 5q15 1.13 2.6E-11 No pair meeting all inclusion criteria rs7849719 9q21.31 1.37E-08
rs702873 2p16 1.12 3.6E-09 No pair meeting all inclusion criteria rs10897897 11q13.4 1.79E-06
rs3134792 6p21.33 NR 1.0E-09 rs1062070 6p21.32 2.88 <10E-06 2.85E-10 rs1062070 6p21.32 5.25E-14
  1. aBold data are genome-wide significant interactions.