Fig. 2: A phase-matching strategy to broaden the applications of iMVP in Nanopore direct RNA-seq.

a The diagram showing the Nanopore-xPore-iMVP strategy with phase matching. b The global visualization of xPore output without phase matching. Clusters #1 to #3 are m⁶A-like motifs in different phases. The bases in the center of the k-mers were indicated by red arrowheads. c The global visualization of phase-matched xPore output. Four types of center bases were shown in different colors. d The global visualization of the phase-matched A-centered cluster in c. e Cumulative distributions of m⁶A-seq winscores of RRACH cluster and CAR cluster from m⁶ACE-seq and xPore datasets (see ”Methods” section). In each subplot, the windows of RRACH and CAR clusters were highlighted in red and blue, respectively, and input windows were in black. Windows with reads per kilobase per million mapped reads (RPKM) values of ≥1 in the input were used for analysis. The P values were determined using a two-sided Kolmogorov–Smirnov test. One sample with one IP and one input experiment was performed to obtain winscore data.