Figure 6: RIP-Seq identifies cell cycle regulators and lineage-specific oncogenes as novel CPEB4 targets. | Nature Communications

Figure 6: RIP-Seq identifies cell cycle regulators and lineage-specific oncogenes as novel CPEB4 targets.

From: Lineage-specific roles of the cytoplasmic polyadenylation factor CPEB4 in the regulation of melanoma drivers

Figure 6

(a) Interaction networks of the GO-terms (database 02.10.2015) enriched in the CPEB4-bound transcripts identified by RIP-seq in SK-Mel-103. Data were plotted using Cytoscape v3.2.1 and the ClueGO plug-in v2.1.7 (see GO-terms networks of RWP1 pancreatic cell line in Supplementary Fig. 6a). Numbers correspond to GO-gene sets further described in Supplementary Data 2. Node sizes represent the statistical significance of the terms (***P<0.0005; **P<0.005; *P<0.05). Supplementary Data 2 contains detailed information on the CPEB4-bound transcripts and the specific genes in the 117 identified clusters. Supplementary Data 3 lists GO-enriched categories for CPEB4-bound targets in RWP1 pancreatic cancer cells to demonstrate the minimum overlap with the melanoma SK-Mel-103. (b) IPA of functional categories enriched in CPE-containing transcripts identified by CPEB4 RIP-Seq in SK-Mel-103. (c) Protein–protein interaction network of the genes included in the IPA ‘cell cycle’ and ‘cellular growth and proliferation’ clusters of b analysed by STRING and Cytoscape for the visualization of signalling hubs recognized by CPEB4 in melanoma cells (see Supplementary Fig. 7 for validation of selected CPEB4 direct targets).

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