Skip to main content
Fig. 5 | Genome Biology

Fig. 5

From: SynthEx: a synthetic-normal-based DNA sequencing tool for copy number alteration detection and tumor heterogeneity profiling

Fig. 5

CNA genomic landscape comparing SNP arrays and whole exome sequencing tools in TCGA breast cancers. Using SWITCHplus, segments of copy number gained (above x-axis) and lost (below x-axis) are plotted from a SNP array, b SynthEx, c VarScan2, d ADTEx, and e control-FREEC. The frequency of an alteration out of the 92 tumors analyzed in each tool is indicated on the y-axis from 0–100%. Regions in red (gains) or green (loss) indicate segments that contain at least one gene whose discrete copy number alteration direction call is significantly different from SNP by Wilcoxon test

Back to article page