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Fig. 2 | BMC Medical Genomics

Fig. 2

From: Retrovirus insertion site analysis of LGL leukemia patient genomes

Fig. 2

Linear discriminant analysis based on HERV-K status of T-LGL-EUR patients and KGP super populations. Linear discriminant analysis (LDA) was conducted on data generated by a comprehensive analysis of polymorphic HERV-Ks in an individual genome [18]. a Data is based on three HERV-K states of ‘absence,’ ‘solo LTR’, ‘provirus’ or b. The n/T ratio of each known HERV-K provirus for T-LGL leukemia patients of European ancestry and the 28 individuals from KGP super populations with high coverage data. The ratio indicates the proportion of k-mers derived from a person’s WGS dataset (n) that are 100% match to a set of unique k-mers (T) characterizing each HERV-K provirus. The improved resolution of T-LGL-EUR patients from other individuals using n/T likely reflects that alleles of HERV-K contribute to population differentiation. The symbols and colors for each KGP populations and T-LGL-EUR leukemia patients are indicated in the key on the right

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