Identification of Networks of Co-Occurring, Tumor-Related DNA Copy Number Changes Using a Genome-Wide Scoring Approach
Figure 6
a. The reduced core network for the gain-gain analysis obtained by pruning all edges with less than 5% support in the top 500 list of the Scale 2 analysis. Edge thickness and label represent the number of functional interactions between genes associated with the nodes being connected based on the STRING database. The oncogenes as defined by the Cancer Gene Census that map within the regions defined by the nodes are shown in rectangular insets. b. Representation of the 10 most enriched Ingenuity terms associated with the entire collection of genes in the core network that have a STRING interaction along the edges. The x-axis shows the −log transformed p value, corrected by the Benjamini Hochberg procedure as implemented in the Ingenuity software. c. Functional interaction enrichment is shown as a bar graph, which represent the ratio of interacting genes with respect to the total number of genes. P-values are determined using a Fishers' Exact test with randomly selected pairs of loci representing the null hypothesis.