Figure 3.

A densely connected subnetwork of oncogenes in PCI is mediated by varying populations of miRNAs across the four ceRNETs. CCND1, HMGA2 and HIF1a are predicted to regulate each other as ceRNAs in PCI. As an illustrating example of context-dependent mediation for PCI interactions, we identified the miRNAs that are predicted to mediate each of the three interactions in each of the four ceRNETs. For example, Cupid predicted that CCND1 and HIF1a have 38 shared miRNAs, but their ceRNA interaction was predicted to be mediated by only 16, 13, 12 and 11 miRNAs in BRCA, GBM, OV, and PRAD, respectively. miR-19a was the only mediator predicted to mediate this interaction in all four ceRNETs, resulting in no cross-ceRNET similarity: Krippendorff's alpha coefficient of −0.03 and Jaccard index of 0.03.