Fig. 2: Imputing HLA alleles in African populations using a continental reference panel. | Nature Medicine

Fig. 2: Imputing HLA alleles in African populations using a continental reference panel.

From: High-resolution African HLA resource uncovers HLA-DRB1 expression effects underlying vaccine response

Fig. 2

a, HLA imputation performance (measured as locus-specific concordance between alleles called to two-field (four-digit) resolution) in the VaccGene populations using the traditional method and reference set (HLA*IMP:02) clustering by locus and population. Results were compared to the performance of our enhanced high-resolution algorithm and reference dataset (HLA*IMP:02G) using the same individuals divided into validation and test groups using a fivefold cross-validation approach. b, HLA imputation performance comparing results from the ME-HLA panel to those from HLA*IMP:02G called to six-digit ‘G’ resolution. Means of performance are plotted as points for each comparison in both plots. Full statistics are available in Supplementary Tables 8–10. A total of 167 individuals with both genotype and HLA data were available from Burkina Faso, 396 from South Africa and 320 from Uganda; 883 individuals were included for the VaccGene comparison.

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