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. 2021 Nov 6;3(1):100069. doi: 10.1016/j.xhgg.2021.100069

Figure 3.

Figure 3

Population structure of South Asians in the SNP2HLA reference panels

The first two principal components from a PCA of 6,421 individuals of South Asian ancestry are shown. (A–J) Results divided by 10 different source populations: populations in (A)–(D) are from the psoriasis GWAS of this study, the population in (E) is from an inflammatory bowel disease case-control cohort of B.K. Thelma, and populations in (F)–(J) constitute the SAS superpopulation of phase 3 of the 1000 Genomes Project. (K) Results for all populations combined. Points are colored by whether they are part of any of the SNP2HLA panels used for imputation of HLA variants in South Asians; blue, green and red colors indicate whether the individual was not part of any panel, was part of panels used for imputation of 5 HLA genes (A, B, C, DQB1, DRB1), or was part of panels used for imputation of 8 HLA genes (A, B, C, DPA1, DPB1, DQA1, DQB1, DRB1), respectively.