A set of independent genome-wide significant ( P < 5 x 10 -8 ) associations identified by step-wise regressions (conditioned joint analysis), and with INFO > 0.8, are plotted versus their imputed allele frequency ( x axis). Blue points represent variants that were flagged by step-wise regressions in one dataset and also showed a significant GWAS association in the other dataset. Red points indicate variants unique to that dataset. The shape of the data points reflects the predicted consequences of the variants as determined by the Ensembl Variant Effect Predictor (release 105) 14 . Dots represent functional variants, including stop gained, stop lost, splice donor/acceptor, frameshift, in-frame insertion/deletion and missense variants and the triangles indicate non-functional variants. The dashed lines indicate the smallest hypothetical effect sizes that can be captured by the P -value threshold ( P < 5 x 10 -8 ) at power of 0.5.
