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Chunk #52 — Methods — Quantification of ancestry—UW

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Identification, replication, and functional fine-mapping of expression quantitative trait loci in primary human liver tissue.
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PCA was performed using the multi-dimensional scaling procedure implemented in PLINK v1.06 (http://pngu.mgh.harvard.edu/purcell/plink/) [61]. The vast majority of samples resided in a single cluster including all the individuals of self-reported European ancestry, with several moderately outlying samples corresponding to self-reported Hispanic and African ancestry. No samples were excluded from further analyses; the vectors determined for the first two principal components were used as ancestry control for all statistical analyses.