Fig. 5.

Pericentromeric HSATII repeats expand both locally and genome-wide in primary human colon cancer samples. CNV analysis of HSATII–chr16-1 (A) and HSATII–chr16-2 (B) loci on the indicated paired colon specimens (n = 10) is shown. For each sample, values were normalized for β-actin DNA and corrected for chr16q arm changes. Probability was measured by the paired t test. FC, mean fold change. (C) Relative percentage of HSATII copy number changes in colon tumor/normal pairs according to combined HSATII–chr16-1 and HSATII–chr16-2 CNV analysis, including correction for chr16 arm gains/losses. (D) Heat map of whole-genome sequencing data on the indicated primary colon cancer specimens based on a log₂ ratio cutoff of 0.1. (E) Kaplan–Meier curve of overall survival (days) of patients with primary colon cancers with HSATII CNV gain or no gain. P = 0.034 (log-rank P value).