Figure 3

Genetic divergence of the ovarian metastasis from the primary gastric cancer for critical candidate drivers. The genomic position of the mutation, copy number variations (CNV) regions or loss-of-heterozygosity (LOH) intervals are shown from the cancer genomes. For the chromosome plots, the Y axis designates position with the respective chromosome, its length in megabases (MB) and ideogram designation shown to the left of the copy number profile. Deleterious mutations are shown as boxed arrows with the gene symbol. (a) The genome wide distribution of cancer-specific CNVs and LOH intervals are summarized across all chromosomes for the primary tumor and metastasis. (b) On Chromosome 3, the metastasis had unique biallelic events involving a deleterious TGFBR2 mutation and a genomic deletion affecting the other allele as seen most clearly with LOH intervals. Secondary to genomic deletions, LOH is demonstrated as a shift in the minor allelic frequency ratio value of -1 and correlates with a genomic deletion. (c) On chromosome 10, the FGFR2 gene was located in a genomic amplification region seen only in the primary and not the metastasis. The amplification is noted in a red circle.