Extended Data Fig. 1: LILAC’s validation.
From: Genetic immune escape landscape in primary and metastatic cancer
a) HLA-I typing tumor and germline agreement in PCAWG. Venn diagrams representing the overlap of germline samples with perfect 2-field HLA-I allotype match in b) Hartwig and c) PCAWG. d) Left, copy number of minor and major alleles of HLA-A, HLA-B and HLA-C in Hartwig dataset. Right, proportion of samples with integer minor and major copy number (copy number <=0.3 or >=0.7) of HLA-I genes (orange) compared to the average of 1,000 randomly selected genes (gray) in the Hartwig cohort (N=4,439). e) analogous for PCAWG samples (N=1,880). Box-plots: center line, median; box limits, first and third quartiles; whiskers, lowest/highest data points at first quartile minus/plus 1.5× IQR. N, number of samples.
