Supplementary Figure 1: Signal plots for association signals achieving locus-wide significance at the KCNQ1 locus.

Association summary statistics are based on the meta-analysis of Metabochip studies in 27,206 cases and 57,574 controls of European ancestry. Results are presented from exact conditioning after adjusting for all other index variants at the locus. Each point represents a SNP passing quality control in the meta-analysis, plotted with its conditional P value (on a –log₁₀ scale) as a function of genomic position (NCBI Build 37). In each plot, the index variant is represented by the purple symbol. The color coding of all other SNPs indicates LD with the index variant in European-ancestry haplotypes from the 1000 Genomes Project reference panel: red, r² ≥ 0.8; gold, 0.6 ≤ r² < 0.8; green, 0.4 ≤ r² < 0.6; cyan, 0.2 ≤ r² < 0.4; blue, r² < 0.2; gray, r² unknown. The shape of the symbol corresponds to the annotation of the variant: upward triangle, framestop or splice; downward triangle, nonsynonymous; square, synonymous or UTR; and circle, intronic or noncoding. Recombination rates are estimated from HapMap Phase 2, and gene annotations are taken from the UCSC Genome Browser.