Fig. 3

True ADAR editing sites are reproducible in independent RNA-seq samples of the same cell type. a Fractions of candidate sites detected in at least two samples (X-axis) by only one (REDItools-, RED-ML- or SPRINT-specific), or multiple different methods are shown for annotated (orange circles) and unannotated (blue circles) sites. b Examples of typical Sanger validation results for 2 true (top) and 2 false (bottom) ADAR editing sites. Sanger sequencing electropherograms derived from RNA or genomic DNA (gDNA) are shown. The sites targeted for validation are demarcated by the blue dashed lines and their genomic coordinates are given below. The nearby ADAR sites found by Sanger only are demarcated by the orange dashed lines. Note that the false positive site on the bottom right represents an SNP in DNA that was absent from the SNP databases and missed by the K562 genomic resequencing. c Validation ratios (Y-axis) of the annotated (orange) and unannotated (blue) sites predicted in only one or at least two samples. d A Venn diagram representing the number of annotated (left) and unannotated sites (right) which were detected by one or more different methods in at least two samples. e Validation ratios (Y-axis) of annotated (orange circles) and unannotated (blue circles) sites detected in at least two samples by only one or multiple different methods. a–e Only sites with the maximum editing level of > 0.2 across all 130 samples were used in this analysis. Source data are provided as a Source data file