Major loci for skin and eye color.

aP value for association of skin (n = 685) or eye (n = 625) color with genotype or local ancestry, adjusted for sex and the first three principal components, as described in Materials and Methods.
bSign of the beta value in four groups (combined sample/Santiago/Fogo/Northern Islands). A “–” sign indicates that the derived allele causes lighter skin or a lower T index (Table S1).
cEUR—individuals with Northern and Western European ancestry, HapMap phase III CEU; AFR—individuals with West African ancestry, HapMap phase III YRI; CV—Cape Verdeans.
dP values obtained after controlling for SLC24A5, in addition to the other covariates. The corresponding values without controlling for SLC24A5 are given in Table S2.
eP values obtained after controlling for HERC2, in addition to the other covariates. The corresponding values without controlling for HERC2 are given in Table S2.
fAfter imputation, the most strongly associated SNP at 5p13.3 is the non-synonymous variant SLC45A2 L374F (rs16891982), previously associated with pigmentation [27]. The frequencies of the derived, lightening, alleles are 0.98 and 0.00 in EUR and AFR, respectively.