Applying PCA-Correlated SNPs for Structure and Ancestry Prediction of the Admixed Puerto-Rican Population
Domain:
healthcare
(A) PCA on 7,259 SNPs typed on Puerto-Rican dataset A, as well as Europeans (Spanish and Caucasians), West Africans (Burunge), and Native Americans (Nahua and Quechua) (axes of variation are shown).
(B) Projection of 192 individuals from Puerto Rican dataset A on two significant principal components and variation across the European-West African axis.
(C) Comparison of ancestry coefficient of 192 Puerto Ricans across the West African-European axis and predicted ancestry coefficient using the top 200 PCA-correlated SNPs.
(D) Prediction of West African-European ancestry coefficient in Puerto Rican dataset A using PCA-correlated SNPs versus random SNPs.
(E) Using PCA-correlated SNPs selected as structure informative in Puerto Rican dataset A for ancestry prediction in Puerto Rican dataset B.