FIGURE 5.

Landscape of somatic copy number alterations (SCNA) in the four epithelium samples. A, Genome‐wide profiles of SCNA for four epithelium samples. The absolute values of the log odds ratios for the variant allele read counts at heterozygous single nucleotide variant (SNV) sites in each pair of epithelium and blood samples are plotted according to chromosome coordinates. The log odds ratios were estimated by FACETS. B, SCNA on chromosome 3 leading to the loss of heterozygosity (LOH) status of PIK3CA detected only in cancer epithelium. Regions with copy number alterations are highlighted in light green. The numbers separated by a colon are the major and minor copy numbers for the regions indicated by the arrows. C, SCNA on chromosome 11 leading to the LOH status of ATM detected both in cancer epithelium and adjacent endometriosis. Regions with copy number alterations are highlighted in light green. The numbers separated by a colon are the major and minor copy numbers for the regions indicated by the arrows