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. 2012 Nov 6;7(11):e47614. doi: 10.1371/journal.pone.0047614

Figure 3. Principal component analysis (PCA) validation of exome genotypes for the QE7 individuals.

Figure 3

In order to verify the overall quality of the genotyping call set, the seven Qatari exomes were compared to 1,092 individuals from four continents (1000 Genomes Project October 2011 Integrated Phase 1 Variant Set Release) at 18,865 SNPs segregating in both QE7 and 1000 Genomes that are present in dbSNP build 134 using SMARTPCA [14]. Plotted is PCA 1 (x-axis) vs PCA 2 (y-axis). Individuals are color-coded by continent of origin (European = red, Asian = green, African = blue, American = grey, Qatar = orange). Clustering of the Qatari individuals was verified to be consistent with our prior report [9], where Q1 cluster near Europeans, Q2 in between Q1 and Asians, and Q3 between Q1 and Africans.