Table 1 Signficant SNPs and loci for the considered testing methods
PhenoMargJesterSSImpMargJesterSSImp
BD00000000
CAD11011624096
CD7858588956587
HT00000000
RA2433629688
T1D5636148214264
T2D232216252476
Total172213201102491001111
  • The left side shows the total number of loci containing genome-wide significant SNPs discovered using standard marginal (Marg), local joint (Jester), SnipSnip (SS), and genome-wide imputation (Imp) testing methods. The right side shows the total number of genome-wide significant SNPs discovered using Marg, Jester, SS, and Imp testing methods. For our analysis of T1D and RA, we removed chromosome 6 because of the large-effect HLA locus.