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. 2022 Jan 12;8(2):eabj4010. doi: 10.1126/sciadv.abj4010

Fig. 5. MIR3607 promotes cell proliferation and activates Wnt signaling.

Fig. 5.

(A) Schema of experimental design. Cells expressing high GFP were FACS-sorted, and their pooled RNA was analyzed by RNA-seq. (B) Fold change of gene expression in MIR3607-electroporated versus Scr-electroporated cells, over the gene’s average expression level. DEGs (Adj. P < 0.01) are in red (up-regulated, 73 genes) and blue (down-regulated, 100 genes). Top three DEGs among MIR3607-predicted targets are named. (C) Fold change of 63 predicted MIR3607 targets detected; DEGs are named (*Adj. P < 0.1 and **Adj. P < 0.01). (D) Functional enrichment analysis on DEGs, showing most significant enriched GO terms. Ontology: Biological process. (E) Functionally grouped network based on functional enrichment of DEGs. Size of nodes indicates statistical significance of terms (Bonferroni step down corrected P values); color indicates percentage of DEGs. (F) Heatmap of DEGs highlighting genes associated to the top-ranked annotation cluster from functional annotation clustering analysis. Top three terms and their statistical significance (FDR) are indicated. ES, enrichment score. (G and H) Visualization of normalized coverage tracks from RNA-seq data for whole transcript (left, middle) and expression levels (right) for Apc (G) and Ctnn1b (H) in Scr- and MIR3607-expressing cells. TPM, transcripts per million; n = 3 replicates per condition; Student two-sample t test; *P < 0.05. (I to K) Enrichment plots from GSEA for MSigDB Hallmark Apical Junction (P = 0.01; Adj. P = 0.021), WNT β-catenin Signaling (P = 0.002; Adj. P = 0.006), and GO term Cell Division GO:0051301 (P = 0.002; Adj. P = 0.008).