The trans- and cis-regulation of miRNA editing between human and mouse. (A) ADAR and ADARB1 expression levels for the 16 human and mouse tissues. The experiments were done in technical (Human) or biological (Mouse) replicates, and the mean expression levels were shown. (B) Dot plot showing editing level difference of conserved sites between human and mouse. Editing levels measured from the whole brain sample were used for analysis. Editing sites that are edited in at least one species and genomically encoded as “A” in both species were used for analysis. Differentially edited sites were determined by using Fisher's exact test. P-values were corrected using the Benjamini-Hochberg (BH) method (Benjamini and Hochberg 1995), and a confidence level of 0.05 was used as the cutoff. (C, left) Free energies comparison between miRNAs with “human-high” and “similar” sites. Free energy difference (y-axis) is defined as the free energy of a pre-miRNA in human minus that of its orthologous miRNA in mouse. (Right) Free energies comparison between miRNAs with “mouse-high” and “similar” sites. Free energy difference (y-axis) is defined as the free energy of a pre-miRNA in mouse minus that of its orthologous miRNA in human. The P-value was calculated using Wilcoxon test. (D) Comparison of the distance from nearest Alu element between miRNAs with “human-high” and “similar” sites. The P-value was calculated using one-tailed Wilcoxon test: (*) P < 0.05. (E) Comparison of the distance from nearest B1 repeat element between miRNAs with “mouse-high” and “similar” sites. The P-value was calculated using one-tailed Wilcoxon test. The color codes for species in C–E are the same as in B.
