Figure 7. Shared haplotypes for 39 SNPs at 12q23.3 and LDmatrix.

(A) Shared haplotypes in the 3-Mb region spanning the CRY1 gene in carriers of CRY1Δ11 (n = 12) and noncarriers (n = 732) from the 447-individual validation and the 1000 Genomes Project cohorts. Only the haplotypes of the carriers and the frequency of the haplotypes in noncarriers are shown in the figure. All the markers on chromosome 12 were phased using SHAPEIT, version 2.17, but only 39 are represented. (B) Heatmap of pairwise LD statistics for 39 SNP targets that were determined with the LDmatrix module of LDlink software using the 1000 Genomes Project European subpopulation. Pairwise LD values between the SNPs are described by white-red shading: R² = 0, white; R² = 1, red.