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Figure 2 | Genome Medicine

Figure 2

From: Derivation of HLA types from shotgun sequence datasets

Figure 2

HLAminer performance. HLA allele group and protein coding allele predictions derived from targeted read assembly (black symbols) or direct read alignment (grey symbols) of simulated 100-nucleotide RNA-Seq, WGS and exon capture (ExCap) datasets were compared to original, spiked-in, HLA sequences and performance metrics evaluated (ambiguity, sensitivity and specificity represented by circle, triangle and square symbols, respectively). HLAminer predictions were also obtained from targeted assembly of colorectal cancer (CRC; blue symbols), lymphoma (DLBCL; red, orange and yellow symbols), 1000 Genomes (1KG; green symbols) and ovarian cancer (OV; violet and magenta symbols) patient tumor (T) and/or matched normal (N) shotgun datasets and compared to PCR-based HLA types to calculate performance metrics.

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