Supplementary Figure 12: Data comparisons between current and previously reported datasets.

a, Comparison of transcriptome coverages (mean ± s.d.), with coverage depth per transcript cut-offs at 100 reads and 10 reads. Error bars represent the s.d. from n = 3 library replicates for RT1306, and from n = 2 library replicates for TGIRT1 and TGIRT2. b, Venn diagram of transcripts that are covered by at least 100 reads. c, Correlation plot of sequencing depth per transcript between one replicate in m¹A-quant-seq and one replicate in TGIRT1¹¹ or TGIRT2¹⁹ sequencing data without antibody enrichment, evaluated by Pearson’s r. Plotted are total n = 38882 annotated RNA transcripts in the RefSeq database. d, Comparison of mutation signatures captured by RT1306 and TGIRT1 without and with m¹A antibody enrichment. e, Correlation plot and Pearson’s r values of mutation rates of overlapping mutation sites between RT1306 and TGIRT1, without or with m¹A antibody enrichment. f, Comparison of mutation signatures that are AlkB sensitive (averaged demethylation ratio (DMR) > 10%) between RT1306 and TGIRT1 with m¹A antibody enrichment, evaluated by Pearson’s r. Shown are Venn diagrams for overlapping of AlkB-sensitive mutation sites between the two datasets, correlation plot of DMR of 340 overlapping mutation sites and a Venn diagram of antibody-enriched peaks called by MeRIPtools with fold of enrichment (FC) > 2 (Methods) for RT1306 and TGIRT1.