Fig. 5: Prediction accuracies of models from PGS catalog in the random Native Hawaiian and Native Hawaiian with highest Polynesian ancestry validation sets.
Each PGS model from PGS catalog was assessed in validation datasets from MEC-NH, either from randomly selected individuals (white points) or individuals with highest Polynesian ancestry (yellow points). The standard errors for the R2 were calculated using 1000 sets of bootstrap samples. For BMI and height, the validation cohort consisted of randomly selected 1000 MEC-NH or the 1000 individuals with the highest estimated Polynesian ancestry among the entire MEC-NH cohort (see Methods). This was not restricted to the 1000 individuals reserved for validation in Figs. 2–4 as none of the MEC-NH individuals were used in construction of the publicly available PGS models. For T2D, because only 768 individuals could be defined as either a case or control (346 cases, 422 controls) among the 1000 individuals with highest Polynesian ancestry, we compared to 768 individuals (318 cases, 450 controls) randomly selected among all MEC-NH individuals with T2D case/control status.
