Figure 1

Pattern of CNAs in HER2-amplified breast cancer. (A) Frequency of copy number gain (red) and loss (green) across 218 HER2-amplified tumors using log2ratio ± 0.12 as thresholds for CN gain and loss respectively. Blue regions indicate significant CNAs identified by GISTIC analysis. (B) Frequency of copy number gain (red) and loss (green) across 99 HER2-amplified tumors analyzed by SNP microarrays. Copy number gain and loss were called relative to the GAP-ploidy as described [10].