Table 3

Top regions from GWAS of T2D-related quantitative traits with translation to T2D in Mexican-origin cohorts, ordered by trait from the Discovery stage

Discovery cohortsTranslation cohorts
MarkerChrPosition*GeneTraitRARAFβP valueOR (95% CI)P valueDiscovery and Translation meta-analysis 
P value
rs72194511738957002KRT28/KRT10SI + MC0.380−6.803.92E-061.08 (1.00–1.16)1.06E-023.97E-07
rs68159534183109012TENM3SI + MT0.4314.103.14E-050.92 (0.86–0.99)1.25E-022.47E-06
rs75810572115958079DPP10SI + MG0.056−5.471.74E-041.29 (1.10–1.50)6.67E-034.82E-06
rs3223945172157768NEURL1B/DUSP1MC0.360−15.833.38E-051.17 (1.09–1.26)7.87E-041.12E-07
rs17060946977808519OSTF1/PCSK5MG0.06837.862.56E-060.87 (0.75–1.01)6.89E-023.99E-06
rs13252932825198091DOCK5MT0.04947.715.17E-060.89 (0.75–1.04)6.61E-026.11E-06
rs108309631192708710MTNR1BAIRgG0.220−2.765.23E-121.08 (1.00–1.18)1.83E-015.86E-09
rs2206734620694884CDKAL1AIRgT0.194−2.051.02E-061.19 (1.09–1.30)1.41E-031.11E-08
rs7018475922137685CDKN2B-AS1#/DMRTA1AIRgG0.323−1.644.90E-061.09 (1.02–1.17)2.34E-037.31E-08
rs13871531192673828MTNR1B**AIRgT0.220−2.552.21E-091.07 (0.98–1.16)1.97E-012.72E-07
rs21299691145586169PRDN11/CHST1AIRgG0.4771.142.10E-050.91 (0.85–0.98)2.38E-024.10E-06
rs2053797246370892PRKCEAIRgA0.1621.895.02E-050.91 (0.83–1.00)1.42E-024.21E-06
rs95538491327082326CDK8/WASF3AIRgA0.1991.576.70E-050.86 (0.79–0.94)1.29E-024.70E-06
rs108702029139257411DNLZAIRgT0.430−1.045.37E-051.12 (1.05–1.20)2.08E-027.10E-06
rs108989091172952496P2RY2AIRgA0.4041.414.03E-060.94 (0.86–1.02)9.27E-028.64E-06
rs2237897112858546KCNQ1††DIA0.2511.757.04E-060.73 (0.68–0.79)1.89E-191.24E-21
rs42667639139289825SNAPC4DIA0.489−2.003.46E-061.10 (1.03–1.18)1.23E-024.34E-07
rs206419768998811SLC35B3/TFAP2ASGG0.164−0.197.23E-061.18 (1.08–1.30)7.01E-042.56E-08
rs22910041937997952ZNF793SGA0.1530.163.82E-050.89 (0.82–0.97)9.88E-032.18E-06
rs1260326227730940GCKR‡‡SGT0.3350.134.04E-060.96 (0.89–1.03)5.58E-023.99E-06
  • SNPs with evidence of association with the nearest annotated RefSeq genes listed. Chr, chromosome; OR, odds ratio; RA, reference allele; RAF, reference allele frequency.

  • *Build hg19.

  • ‖Previously identified T2D locus (MTNR1B rs1387153, r2 = 0.69).

  • ¶Previously identified T2D locus (CDKAL1 rs7754840, r2 = 0.42).

  • #Previously identified T2D locus (CDKN2B rs7018475).

  • **Previously identified T2D locus (MTNR1B rs1387153).

  • ††Previously identified T2D locus (KCNQ1 rs2237892, r2 = 0.90; KCNQ1 rs231362, r2 = 0.038).

  • ‡‡Previously identified T2D locus (GCKR rs780094, r2 = 0.91).