Haploview 4.2 (Barrett et al., 2005) was used to build haplotypes, calculate linkage disequilibrium (LD) and generate statistics (expectation maximization) on single markers and haplotypes determined by genotypes at various loci within CHRNA5 in the re-sequenced African-American population (Figure 2), and to calculate LD between SNPs using version 3, release 27 of the CEU+TSI (European descent), CHB+JPT (Asian descent) and ASW (African-American) HapMap data sets for the region encompassing CHRNA5.
