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Table 3 Genotyping results for top ranking single nucleotide polymorphisms in replication cohorts, and combined analysis of discovery and replication cohorts using individual genotyping

From: Pooled genome wide association detects association upstream of FCRL3 with Graves’ disease

    Replication cohorts (Cases = 539, Controls = 1230) Combined discovery and replication cohorts (Cases = 951, Controls = 1710)
SNP name Location chr and bp Gene A1 F_A F_U P value OR_A1 (95 % CI) F_A F_U P value* OR_A1*
Rs9676286 Chr19q13.43
58126481
ZNF134 intron A 0.045 0.039 0.41 1.17 (0.81–1.71) 0.046 0.034 0.04 1.38 (1.02, 1.87)
rs9644119 Chr8p21.2
26517817
DPYSL2
2124 bp downstream
T 0.219 0.174 9.34 × 10−3 1.28 (1.06–1.54) 0.200 0.161 4.02 × 10−3 1.25 (1.07, 1.45)
rs11722643 Chr4p16.1
10127484
Intergenic
WDR1
upstream, ZNF518B downstream
T 0.096 0.095 0.94 0.99 (0.76–1.29) 0.098 0.083 0.14 1.17 (0.95, 1.44)
Rs686806 Chr 11q22.3
107228533
CWF19L2 intron T 0.198 0.210 0.95 0.99 (0.82, 1.20) 0.217 0.197 0.04 1.63 (1.004, 1.35)
rs62469516 Chr7q21.13
88958624
ZNF804B intron A 0.053 0.053 0.64 1.09 (0.77–1.53) 0.048 0.063 0.06 0.77 (0.59, 1.01)
rs73452600 Chr 7q34
142828104
PIP 1070 bp upstream A 0.090 0.084 0.71 1.05 (0.81, 1.36) 0.094 0.077 0.07 1.22 (0.98–1.50)
Rs1662312 Chr 18p11.31
3220450
MYOM1 upstream A 0.070 0.070 0.77 0.93 (0.59, 1.50) 0.049 0.073 1.72 × 10−3 0.61 (0.44, 0.83)
rs1469893 Chr 15q14
34988664
GJD2
56015 bp
Downstream
A 0.074 0.081 0.72 0.95 (0.71, 1.27) 0.064 0.088 7.29 × 10−3 0.73 (0.57, 0.92)
Rs17676303 Chr 1q23.1
157679691
FCRL3
9044 bp upstream
T 0.233 0.201 0.04 1.22 (1.01–1.46) 0.242 0.186 3.41 × 10−6 1.42 (1.22, 1.64)
rs28578508 Chr18q12.1
32316007
DTNA intron A 0.069 0.083 0.13 0.80 (0.60, 1.07) 0.066 0.087 3.21 × 10−3 0.71 (0.56, 0.89)
rs78542322 Chr 6q14.1
77291670
Intergenic
IMPG1 upstream
HTR1B downstream
T 0.094 0.096 0.89 0.98 (0.76, 1.27) 0.084 0.109 9.45 × 10−3 0.76 (0.62, 0.93)
Rs3818779 Chr 10q26.11
121140671
GRK5 intron A 0.055 0.049 0.58 1.10 (0.78, 1.55) 0.057 0.043 0.06 1.31 (0.99, 1.72)
rs2141440 Chr 11q14.3
90898463
Intergenic MIR4490 and FAT3 A 0.094 0.086 0.53 1.09 (0.84, 1.41) 0.087 0.089 0.88 0.98 (0.80, 1.21)
  1. *P values and odds ratios are adjusted for age and sex