Fig. 1
Comparison of copy-number alterations between stage I and stage III ESCC tumors. a Comparison of broad structural genome alterations between stage I and stage III ESCC tumors. Analysis is based on absolute copy numbers. Whole-genome sequencing-based analyses reveal that stage III harbor markedly more SCNAs than stage I tumors (p < 2.2 × 10−16). b Significant, focally amplified (red, left panel) and deleted (blue, right panel) regions of stage I (upper) and stage III (lower) are plotted along the genome. The line represents a G-score of 0.1. The black arrows show significantly amplified regions in stage I tumors or deleted regions in stage III tumors. c Left panel: Copy number assay by qPCR of candidate genes located in regions significantly associated with various tumor stages in 36 atypical hyperplasia tissues (blue). The RNase P gene was used as reference normal (red). Data are mean ± SD. All assays were performed in triplicate. Right panel: The percentage of cases with copy-number amplification for MYC, FAM84B or copy-number loss for FBXW7, FAT1 and PTTG in 36 atypical hyperplasia tissues