Table 2 Loci that were not significant in the standard marginal approach but became significant using Jester
MarginalJesterImputation
DiseaseLocusSNPPVSNP1SNP2ρPVSNPPV
CD5q31.1rs65960755.97E-07rs6596075rs2739130.329.34E-09*rs68975973.22E-8*
6p21.32rs94692209.09E-07rs9469220rs125240630.262.81E-10*rs2101943.359E-6
10q21.3rs107616592.82E-07rs10995271rs109952710.013.02E-09*rs107616591.88e-07
RA1p36.32rs109100993.09E-06rs12027041rs109100990.01.02E-09*rs8674364.795e-07
10p15.1rs21042867.31E-06rs1570527rs21042860.033.71E-09*rs21816235.182e-05
T1D10p15.1rs21042868.28E-06rs12722489rs21042860.741.17E-08*rs127225636.39E-09*
T2D9p21.3rs5230962.49E-04rs10757283rs108116610.513.36E-09*rs125552741.877e-07
  • ρ indicates correlation of SNPs signed with respect to opposite-effect direction. Results at these loci from imputation against 1000 genomes are also reported. P-values (PV) that are significant for a particular testing method are denoted by an asterisk. References for articles reporting significant associations at these loci can be found in Table S2.