Figure 4

Estimates for linkage disequilibrium (LD) and location of major haplotype blocks across 6 selenoprotein loci. Pair wise plots (D') across 6 selenoprotein loci based on genotype data obtained from re-sequencing the 102 person multiethnic SNP500 DNA population, which is comprised of individuals of AA, CA, HI and PR heritage. LD plots for the various ethnic subpopulations are available as supplementary data. Re-sequenced genes include GPX1 (Figure 2), GPX2 (Figure 3), GPX3 (Figure 4), GPX4 (Figure 5), SEPP1 (Figure 6), and TXNRD1 (Figure 7). SNP identifiers are indicated on the abscissas. Numbers within cells correspond to LD values (D'). The LD color scheme is stratified according to the logarithm of the odds (LOD) score and D': LOD <2 (white for D'<1 and blue for D' = 1) or LOD >2 (shades of pink/red for D'<1 and bright red for D' = 1). Haplotype blocks were created using the algorithm of Gabriel et al, Science 2002 [76]. 95% confidence bounds on D' were generated and each comparison was called "strong LD", "inconclusive" or "strong recombination". A block was created if 95% of informative comparisons were "strong LD".