Extended Data Figure 1: Principal component analysis (PCA) projection of SIGMA samples onto principal components calculated using data from samples collected by the Human Genome Diversity Project (HGDP) and 1000 Genomes Project.
From: Sequence variants in SLC16A11 are a common risk factor for type 2 diabetes in Mexico
a, b, PCA projection of SIGMA onto HGDP Yoruba, French, Karitiana and Han (Chinese) populations before ancestry quality control filters were applied (a), with cohort centroids as indicated, and after all quality control filters were applied (b), with case and control centroids as indicated. c, d, Principal components 3 and 4 before filtering samples on ancestry (a small number of samples in the MEC show East Asian admixture) (c), and after all quality control filters were applied (d). e, f, Additional plots as in b but separating cases (e) and controls (f). g, SIGMA samples projected onto the 1000 Genomes Project Omni2.5 genotype data. 1000 Genomes samples are labelled by their continental ancestry group: AFR, African; AMR, Native American descent; ASN, east Asian; EUR, European.
