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Figure 3 | BMC Bioinformatics

Figure 3

From: Data recovery and integration from public databases uncovers transformation-specific transcriptional downregulation of cAMP-PKA pathway-encoding genes

Figure 3

Identification of differentially regulated genes in normal and transformed samples. (A) Samples were sorted in five groups according to mutational activation: green, normal; yellow, Ras; red, PI3K; blue, Other Mutation; cyan, Not Tested. Principal Component Analysis (PCA) performed on 41 PKA pathway-encoding genes for normal samples and the four classes of mutation-dependent samples. Each sphere represents the comparative averaging of the 41 genes for each pathway identified by mutational analysis. (B) For each of the 5 groups described in (A), the 41 PKA-encoding genes were clustered, relative to their level of expression, in three subgroups: Strong (>1, red), Average (=1, black) and Low (<1, green). (C) Gene list according to expression level and mutational group of the three subgroups previously indicated, divided for each sample. Color-coding is as follows: blue, common between normal and at least one transformed sample; yellow, specific for normal samples; grey, specific for transformed samples. Percentage of regulated genes for each subgroup is shown at the bottom. (D) ANOVA analysis to evaluate the statistical significance of the differences between the five classes of samples described in (A). The right inset shows p-value of the pair-wise comparisons. Statistically significant differences are indicated in red. IQR: Interquartile Range. Outliers are also shown.

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