Scatter plot of the first two principal components from an EIGENSTRAT analysis of 10,000 markers with color-coding to show reported ethnicity. Some of the gray dots of “Unknown” ancestry had been reported as White, but they were sufficiently far from the White centroid that they have been recoded as Unknown. Note that “Mixed” was a vague category that seems to include individuals with some European ancestry mixed with either African, Asian or Native American ancestry. Several subjects have been recoded as White because of Mahalanobis D2 less than 84 indicating close proximity to the centroid of the White group in princpipal component space (see Figure 1). These included 2 of 73 reportedly Black subjects, 5 of 60 Hispanic, 17 of 77 Mixed, 9 of 44 Native American and 59 of 66 of Unknown ancestry. An additional 41 of 6564 subjects reported to be White were recoded as Unknown based on the same analysis. The graph reflects the final ethnic classifications that followed the Mahalanobis distance analysis described in the text and in Figure 1.
