Figure 5. Mapping miRNA-target interactions in lung adenocarcinomas.

A) Schematic of the experimental design. B) Total number and distribution across genomic annotations of peaks identified in normal lungs (two replicates) and in the KP and EA lung adenocarcinomas (two and three replicates, respectively) at adjusted p-value < 0.05. C) Scatter plots to compare peak intensity changes in EA vs. normal (y-axis) and KP vs. normal (x-axis). Peaks with seed matches for indicated miRNA families are colored. Left: highlighted are peaks containing seed matches for representative miRNA families whose targets were found in both normal lungs and lung adenocarcinomas. Right: highlighted are peaks with seed matches for miRNA families whose targets were preferentially found in lung adenocarcinomas. Selected motifs and their p-values as determined by the HOMER de novo motif discovery algorithm are shown on the side. D) Genome browser view of the miR-200bc-3p binding site in the 3’UTR of Zeb2. E) Targets identified by HEAP show preferential de-repression upon inactivation of the miRISC. Cumulative distribution function (CDF) plot of mRNA expression changes induced by T6B-YFP expression in murine KP cells (T6B^WT-YFP / T6B^MUT-YFP). Targets identified by HEAP for the indicated miRNA families were compared to background (“all genes”). P-value: two-sided Kolmogorov–Smirnov test.

See also Figure S5B–E. See Data S2 for peaks identified in normal lungs and lung adenocarcinomas.