Fig. 4: HEK293T RNA m6A detection. | Nature Methods

Fig. 4: HEK293T RNA m6A detection.

From: Uncalled4 improves nanopore DNA and RNA modification detection via fast and accurate signal alignment

Fig. 4

a, AUPRC for comparative RNA m6A modification detection using Uncalled4, Nanopolish and Tombo alignments as input to KS statistics, xPore or m6Anet. ‘Uncalled4 (spliced)’ (magenta) is based on spliced genome alignments, while all others use transcriptome alignments averaged to the gene level. b, Precision-recall curves comparing m6Anet performance on a single HEK293T sample using Uncalled4 or Nanopolish alignments. Solid lines include all sites that are covered by basecalled alignments by at least 20 reads, where sites not output by either tool are assigned a score of zero, generating a large discontinuity for Nanopolish due to pervasive masking. The dashed curves include all sites output by either aligner (union), while dotted curves only include sites output by both aligners (intersection). c, True positive rate and precision binned by basecalled read coverage. m6Anet probability threshold was selected such that the overall precision for each aligner equals 90% (dashed horizontal line in b).

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