Europe North America
Region rs Gene OR P OR
4q23 rs12299844:1002393ADH1B A G Geno 0.48 1.55E-05 0.70 6p21.32 rs14648656:32479729 T A Geno 0.52 2.32E-04 0.40 6p21.32 rs28724206:3255649HLA-DRB1A G 0.76 1.44 1.60E-03 1.44 6p21.32 rs53470576:32562023 A G 0.77 1.41 4.68E-05 1.32 6p21.32 rs31297586:32584625 G A 1.00 1.38 2.38E-05 1.32 6p21.32 rs2009115 6:32596799 D I Geno 0.63 1.14E-05 0.61 6p21.32 rs54810216:32598813 A G 0.68 0.44 3.02E-05 0.40 6p21.32 rs31043766:32600003 A G Geno 0.72 5.14E-05 0.77 6p21.32 rs31043696:32602482 A G Geno 0.71 6.55E-06 0.81 6p21.32 rs92722936:3260374HLA-DQA1G A 0.95 1.45 1.55E-06 1.27 6p21.32 rs92726026:3260766HLA-DQA1A G 0.81 1.44 2.58E-05 1.31 6p21.32 rs92726796:3260893HLA-DQA1C T 0.88 1.37 4.96E-05 1.35 6p21.32 rs78496076:3260896HLA-DQA1G A 1.00 0.58 1.57E-05 0.53 6p21.32 rs78712216:3261030HLA-DQA1T C 0.98 0.58 1.77E-05 0.53 6p21.32 rs92730606:3261211 HLA-DQA1G A 0.85 1.29 5.79E-04 1.33 6p21.32 rs92731056:3261260HLA-DQA1A G 0.83 1.30 4.64E-04 1.34 6p21.32 rs17612486:3261474HLA-DQA1A T 0.83 1.35 4.72E-05 1.38 6p21.32 rs17612566:3261544HLA-DQA1G T 0.77 1.35 2.67E-05 1.34 6p21.32 rs17843576:3261551HLA-DQA1T C 0.95 1.32 2.65E-04 1.32 6p21.32 rs17843576:3261552HLA-DQA1G T 0.97 1.31 5.11E-04 1.32 6p21.32 rs28418426:3261965HLA-DQA1C T 0.70 1.48 2.57E-08 1.35 6p21.32 rs17612816:3262046HLA-DQA1G T 0.84 1.29 2.32E-04 1.31 6p21.32 rs17612856:3262057HLA-DQA1A G 0.95 1.47 1.11E-06 1.37 6p21.32 rs13947446:3262061HLA-DQA1D I Geno 0.57 1.09E-05 0.53 6p21.32 rs17612906:3262083HLA-DQA1C G 0.72 1.41 8.57E-06 1.30 6p21.32 6:32621596:32621590 C T 0.79 1.52 4.46E-05 1.35 6p21.32 rs17843696:3262223HLA-DQA1G A 0.80 1.38 3.25E-04 1.36 6p21.32 rs92733356:32623348 G A 0.94 1.32 4.65E-04 1.32 6p21.32 6:32625206:32625209 T C 0.80 1.41 9.13E-06 1.36 6p21.32 rs12055446:3262673HLA-DQB1G A 1.00 1.30 2.38E-05 1.30 6p21.32 rs92734156:3262731HLA-DQB1T C 0.87 1.35 8.33E-05 1.35 6p21.32 rs92734266:3262743HLA-DQB1C A 0.83 1.31 3.61E-04 1.39 6p21.32 rs92734366:3262751HLA-DQB1G T 0.85 1.37 2.42E-05 1.31 6p21.32 rs92734406:3262756HLA-DQB1C T 0.95 1.47 2.48E-06 1.36 6p21.32 rs10492256:3262774HLA-DQB1A G Geno 0.71 3.03E-05 0.75 6p21.32 rs10492136:3262777HLA-DQB1G A 0.97 1.47 2.95E-06 1.35 6p21.32 rs92735006:3262834HLA-DQB1A G Geno 0.74 6.34E-04 0.75 6p21.32 6:32630916:32630916 T G 0.93 1.41 3.87E-05 1.36 6p21.32 rs1140317 6:3263260HLA-DQB1A C 0.83 1.36 1.20E-05 1.30 6p21.32 rs28746816:3263328HLA-DQB1T C 0.79 1.47 2.94E-06 1.39 6p21.32 rs92744836:3263380HLA-DQB1C T 0.89 1.44 7.87E-06 1.27 6p21.32 rs38300586:3263401HLA-DQB1A G 1.00 1.41 3.07E-05 1.34 Supplementary Table 6 Oropharynx cancer results (P<5 x10-8 )
Chr:posa
Effect
6p21.32 rs10490626:3263430HLA-DQB1G A 0.99 1.40 3.88E-05 1.33 6p21.32 rs10490556:3263438HLA-DQB1G A Geno 0.71 3.39E-05 0.75 6p21.32 rs71789646:3263440HLA-DQB1I D Geno 0.71 3.80E-05 0.75 6p21.32 rs28986226:3263531HLA-DQB1A G Geno 0.71 5.38E-05 0.76 6p21.32 rs92746146:3263584HLA-DQB1G C 1.00 1.43 1.50E-05 1.35 6p21.32 rs92746266:3263604HLA-DQB1C T 0.96 1.42 1.58E-05 1.32 6p21.32 rs38288056:3263612HLA-DQB1C T 0.88 1.47 5.48E-07 1.41 6p21.32 rs31349946:32637680 C T 1.00 1.43 1.48E-05 1.36 6p21.32 rs31297826:32648719 A G 0.98 1.44 8.56E-06 1.34 6p21.32 rs31349766:32652305 C A 1.00 1.43 1.49E-05 1.36 6p21.32 rs31349756:32652581 C T 1.00 1.43 1.57E-05 1.36 6p21.32 rs21570516:32658624 A G 0.96 1.42 5.23E-05 1.34 6p21.32 rs31297196:32661779 G T 1.00 1.43 1.49E-05 1.35 6p21.32 rs31297206:32663631 C T 1.00 1.43 1.49E-05 1.35 6p21.32 rs31350066:32667119 A G Geno 0.69 1.14E-05 0.74 6p21.32 rs31351906:32667946 G T 1.00 1.44 1.17E-05 1.33 6p21.32 rs31350026:32668439 C A 1.00 1.40 1.05E-04 1.35 6p21.32 rs31350016:32670136 C T 1.00 1.44 1.07E-05 1.33 6p21.32 rs31349956:32672089 A G Geno 0.70 1.53E-05 0.75 6p21.32 rs31297266:32678206 A G 0.99 1.39 5.91E-05 1.30 6p21.32 rs31354616:32680122 A G 0.99 1.37 1.01E-04 1.34
a SNP position according to NCBI genome build 37 (Hg19)
bGeno=genotyped, SNP, INFO, Rsq is the average across imputation batches. c Frequency of the effect allele.
North America South America
P OR P OR P
1.6E-02 0.34 1.2E-04 0.02 0.06 0.55 8.5E-09 0.05 1.1E-06 0.81 3.7E-01 0.03 0.04 0.53 1.2E-08 0.06 1.2E-06 1.10 4.5E-01 0.21 0.17 1.37 2.9E-08 0.18 9.1E-06 1.03 8.0E-01 0.62 0.58 1.28 3.5E-08 0.05 5.6E-07 0.97 7.5E-01 0.67 0.64 1.26 8.4E-09 0.01 4.2E-07 1.11 4.5E-01 0.09 0.11 0.71 3.5E-08 0.00 2.1E-06 0.99 9.6E-01 0.03 0.05 0.50 1.9E-08 0.02 9.8E-05 0.87 2.1E-01 0.18 0.22 0.77 2.1E-08 0.42 6.1E-04 0.88 2.0E-01 0.22 0.26 0.79 3.2E-08 0.21 1.4E-05 1.01 9.2E-01 0.62 0.57 1.26 8.9E-09 0.01 4.9E-06 1.05 6.5E-01 0.55 0.51 1.28 1.1E-08 0.05 1.1E-07 0.97 7.3E-01 0.62 0.58 1.28 4.2E-09 0.01 9.4E-07 1.07 6.8E-01 0.05 0.08 0.64 2.6E-08 0.00 1.1E-06 1.06 7.3E-01 0.05 0.07 0.64 2.5E-08 0.00 9.3E-07 1.03 7.8E-01 0.55 0.51 1.25 3.2E-08 0.07 5.5E-07 1.02 8.5E-01 0.55 0.51 1.26 2.1E-08 0.05 2.2E-08 0.99 9.0E-01 0.53 0.48 1.30 4.2E-10 0.01 7.1E-07 1.02 8.7E-01 0.44 0.39 1.29 1.6E-09 0.05 4.9E-07 1.02 8.4E-01 0.61 0.56 1.26 1.4E-08 0.04 4.4E-07 0.99 9.5E-01 0.61 0.57 1.25 4.2E-08 0.02 1.4E-06 1.01 9.4E-01 0.57 0.53 1.34 1.3E-11 0.01 1.9E-06 0.99 8.9E-01 0.50 0.46 1.24 4.9E-08 0.04 6.8E-07 1.10 3.6E-01 0.78 0.73 1.35 2.7E-11 0.09 8.2E-07 1.09 6.0E-01 0.05 0.07 0.64 2.5E-08 0.00 3.7E-05 0.99 9.6E-01 0.41 0.38 1.28 4.5E-08 0.03 1.0E-06 1.04 7.0E-01 0.42 0.38 1.31 6.5E-09 0.03 2.1E-07 1.02 8.5E-01 0.54 0.50 1.29 9.3E-09 0.03 4.4E-07 1.00 9.9E-01 0.61 0.57 1.25 3.3E-08 0.03 1.3E-07 1.04 7.1E-01 0.51 0.46 1.31 1.5E-10 0.04 6.9E-07 1.05 5.8E-01 0.57 0.53 1.26 5.9E-10 0.11 1.2E-07 0.99 9.4E-01 0.55 0.51 1.28 2.8E-09 0.02 8.8E-09 0.99 8.9E-01 0.53 0.49 1.29 1.3E-09 0.01 2.8E-06 1.00 9.7E-01 0.54 0.50 1.26 1.3E-08 0.02 1.6E-06 1.11 3.4E-01 0.80 0.76 1.35 8.6E-11 0.13 5.7E-06 0.91 4.1E-01 0.19 0.22 0.76 3.0E-09 0.17 2.8E-06 1.08 4.6E-01 0.80 0.76 1.33 3.5E-10 0.09 3.2E-05 0.81 9.7E-02 0.15 0.18 0.75 2.2E-08 0.84 2.5E-06 1.07 5.4E-01 0.79 0.76 1.32 3.0E-09 0.12 4.5E-06 0.95 6.5E-01 0.46 0.43 1.26 2.0E-08 0.01 2.4E-07 0.94 5.9E-01 0.33 0.30 1.33 8.0E-10 0.00 1.5E-04 1.10 4.0E-01 0.75 0.72 1.29 2.7E-08 0.13 5.7E-06 1.10 4.1E-01 0.81 0.78 1.32 3.0E-09 0.18
Meta-analysisd
Frq.c
Cases Frq.
c
8.9E-06 1.10 4.1E-01 0.80 0.77 1.31 5.4E-09 0.19 5.8E-06 0.91 4.0E-01 0.19 0.22 0.76 3.2E-09 0.19 6.2E-06 0.92 4.3E-01 0.19 0.22 0.76 4.2E-09 0.17 2.4E-05 0.90 3.5E-01 0.18 0.21 0.77 1.4E-08 0.25 2.6E-06 1.10 3.8E-01 0.81 0.77 1.33 6.9E-10 0.17 1.2E-05 1.14 2.4E-01 0.79 0.76 1.32 1.4E-09 0.29 7.8E-08 1.09 4.2E-01 0.75 0.72 1.37 2.2E-12 0.07 2.1E-06 1.10 4.2E-01 0.81 0.78 1.33 6.4E-10 0.15 4.1E-06 1.10 3.9E-01 0.80 0.77 1.33 7.6E-10 0.14 2.1E-06 1.10 4.0E-01 0.81 0.78 1.33 5.9E-10 0.17 2.0E-06 1.10 4.1E-01 0.80 0.77 1.33 6.7E-10 0.15 1.2E-05 1.20 1.3E-01 0.83 0.80 1.34 1.4E-09 0.55 2.3E-06 1.10 4.2E-01 0.80 0.77 1.33 7.7E-10 0.15 2.3E-06 1.09 4.2E-01 0.80 0.77 1.33 7.7E-10 0.15 2.4E-06 0.91 3.8E-01 0.19 0.23 0.75 5.4E-10 0.15 9.1E-06 1.14 2.7E-01 0.81 0.78 1.33 9.9E-10 0.25 1.3E-05 1.20 1.3E-01 0.84 0.81 1.34 2.9E-09 0.61 7.4E-06 1.13 2.8E-01 0.81 0.78 1.33 8.0E-10 0.24 7.1E-06 0.88 2.8E-01 0.18 0.21 0.75 9.3E-10 0.27 3.7E-05 1.12 3.3E-01 0.81 0.78 1.30 1.8E-08 0.30 8.2E-06 1.17 1.7E-01 0.81 0.78 1.32 2.6E-09 0.48
