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. 2016 Jan 4;6:18669. doi: 10.1038/srep18669

Figure 3. Metabolic gene CNA accumulations in metastatic tumors.

Figure 3

(A) Comparison between primary and metastatic tumors for frequency of tumors with copy number gains in metabolic genes. Red bars indicate the frequency of tumors that show a copy number gain (defined as GISTIC2 normalized copy number gain > 1), grey bars indicate –log10 of the p-value from Fischer’s exact test (two-tailed) comparing copy number gain frequency of each gene between primary and metastatic tumors. Inset bar graph shows average copy numbers of the six significant genes in primary and metastatic tumors. (B) Heatmaps showing copy number alterations in pan-cancer tumors split into clusters. The tumors were clustered (K-means, k = 2) according to the copy number profiles of the 6 genes with significant accumulation of copy number gains in metastatic tumors (SCO2, MLXIPL, PPARA, PPARD, CAV1 and CD36). (C) Kaplan-Meier survival curve for pan-cancer tumors stratified by the two copy number distribution clusters. P-value indicates significance levels from the comparison of survival curves using the Log-rank (Mantel-Cox) test. (D) Ideograms depicting the genomic location of the six significant copy number gains. Blue boxes indicate the cytogenetic bands that were identified as focal somatic number alterations gain peaks in the GISTIC analysis of TCGA data across all cancers, and the gray bars show the distance between the six genes to the nearest gain peak.