Fig. 3

ADAR1 edits CDK13 transcript at position c.308A > G. A Distribution of 12 types of nucleotide changes across the entire transcriptome of Cal62 cells after ADAR1 knockdown, as profiled by RNA-seq. B RNA-seq analysis showing a global reduction in the total number of variants after ADAR1 silencing. C Distribution of A-to-I editing sites over annotated genomic regions. Abbreviations: UTR, untranslated region. D Details of the position and significance of the CDK13 editing event that is downregulated after ADAR1 knockdown in Cal62 cells. Fold-change and FDR refers to the allele frequency change in siControl versus siADAR1. E and F Sanger sequencing chromatograms using a reverse primer illustrate editing of the selected CDK13 event in siControl, siADAR1 #1, siADAR1 #2 and genomic DNA (gDNA) in Cal62 (E) and TPC1 (F) thyroid cancer cell lines. G CDK13 c.308 A > G editing frequency in normal (n = 6) and PTC tumor samples (n = 6) calculated by taking the peak area of G versus A using Indigo. Error bars indicate standard deviations. Asterisks denote statistical significance as assessed with Student’s t-test (two-tailed). * p < 0.05