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Fig. 3 | BMC Medical Genetics

Fig. 3

From: Copy number variation is highly correlated with differential gene expression: a pan-cancer study

Fig. 3

Comprehensive analysis of concordance between CNV and differential gene expression. a. The count ratio of copy number amplification and expression level upregulation (Blue), copy number deletion and expression level downregulation (Green) of the total variant copy number count across each primary site of cell lines in CCLE. CNS: central nervous system; HLT: haematopoietic and lymphoid tissue; UAT: upper aerodigestive tract. b. The count ratio of copy number amplification and expression level upregulation (Blue), copy number deletion and expression level downregulation (Green) of the total variant copy number count across each cancer type of TCGA. c. Scatter plot shows the distribution of 18,174 genes based on the frequency of copy number amplification and expression level upregulation (x-axis) and the frequency of copy number deletion and expression level downregulation (y-axis) among 9159 tumor samples in TCGA. The color represents the count ratio of copy number deletion and expression level downregulation against copy number amplification and expression level upregulation, blue representing higher ratio of copy number deletion and expression level downregulation, red representing higher ratio of copy number amplification and expression level upregulation. d. Genes were sorted according to the count ratio of copy number deletion and expression level downregulation against copy number amplification and expression level upregulation among 9159 tumor samples in TCGA. A&U: copy number amplification and expression level upregulation. D&D: copy number deletion and expression level downregulation

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