TABLE 2

Associations with HbA1C of 10 independent loci identified in the meta-analysis

SNPChrPos (B36)Nearest locusEffect/other alleleCEU freq (effect)HbA1C (%) associationHeterogeneity
Freq (effect)Nβ (SE)Pχ2P valueQ PI2 (%)
rs27791161156,852,039SPTA1T/C0.320.2734,6630.024 (0.004)2.75 × 10−90.6730.6060
rs5529762169,616,945G6PC2/ABCB11G/A0.660.6440,420*0.047 (0.003)8.16 × 10−180.5960.5910
rs1800562626,201,120HFEG/A0.960.9443,778*0.063 (0.007)2.59 × 10−200.6610.30011
rs1799884744,002,308GCKT/C0.200.1845,591*0.038 (0.004)1.45 × 10−200.1870.12024
rs6474359841,668,351ANK1T/C0.970.9729,9970.058 (0.011)1.18 × 10−80.3280.26715
rs4737009841,749,562ANK1A/G0.280.2436,8620.027 (0.004)6.11 × 10−120.1820.18221
rs169262461070,763,398HK1C/T0.890.9042,707*0.089 (0.004)3.11 × 10−540.3290.16221
rs13871531192,313,476MTNR1BT/C0.280.2832,2930.028 (0.004)3.96 × 10−110.8670.8570
rs799820213112,379,869ATP11A/TUBGCP3G/A0.150.1434,7240.031 (0.005)5.24 × 10−90.4150.3836
rs10468961778,278,822FN3KT/C0.250.3145,953*0.035 (0.003)1.57 × 10−260.4500.4402
rs8557912235,792,882TMPRSS6A/G0.390.4234,5620.027 (0.004)2.74 × 10−140.9700.9620
  • *Indicates SNPs for which additional de novo genotyping was performed in eight cohorts. The β coefficient denotes the per-effect allele increase in HbA1C (%) at that locus.