Fig. 4: Identification of the mRNAs bound by D1 and N3 in hPGCLCs.

A Schematic illustration of the iTRIBE strategy for capturing the mRNAs bound by D1 and N3 in hPGCLCs. B Distribution of the editing sites of D1-ADAR (top) and N3-ADAR (bottom) in day 4 hPGCLCs. C Bar graph showing the number of editing sites (A–G) detected in control, D1-ADAR and N3-ADAR day 4 hPGCLCs. D Tracks showing the mRNAs bound by both D1 and N3 (left), D1 only (middle), and N3 only (right). E Top enriched de novo motifs identified within 100 bp upstream and downstream of the D1 and N3 editing sites. A one-sided hypergeometric test was employed to determine whether particular motifs are significantly overrepresented in the target set compared to background regions. F Venn diagram showing the overlap of D1 target mRNAs and N3 target mRNAs. Purple: D1 target mRNAs, Yellow: N3 target mRNAs. G GO term analysis of the 746 mRNA targets bound by both D1 and N3 in (F). To account for multiple hypothesis testing, p values were adjusted using the Benjamini-Hochberg method. Multiple comparisons are adjusted using FDR (q-value) and q value Cutoff = 0.2 to control the false discovery rate. H Box plots showing the transcript abundance of control, D1-ADAR, D1-KO, N3-ADAR, and N3-KO hPGCLCs for the mRNA targets bound by both D1 and N3 in (F). Statistical significance between groups was calculated using two-tailed unpaired t-tests, comparing experimental groups to the control groups. Data are shown as Mean with SD. The minimum and maximum values were defined as the lowest and highest data points within 1.5 times the interquartile range (IQR) from the first and third quartiles, respectively. The center of the box represents the median, and the upper and lower boundaries of the box correspond to the first and third quartiles (25th and 75th percentiles). The whiskers extend to the most extreme data points within 1.5 IQR of the quartiles, and data points beyond this range are plotted as outliers. See also Supplementary Fig. 4.