Fig. 2: Simultaneous profiling of polyadenylated and non-polyadenylated transcriptomes using the combinatorial RT strategy.
From: Real-time and programmable transcriptome sequencing with PROFIT-seq
a, The percentage of reads derived from different primers. Rep, biological replicates. The colours indicate dsdT, dsN and ssN, respectively. b, The length of different primed reads in combinatorial RT libraries. c, The coverage across the top 1,000 highly expressed transcripts in different primed reads. The x axis represents the relative position along the transcript, and the y axis is the per cent coverage of combined reads. d, The proportion of reads aligned to transcripts of different biotypes according to the GENCODE annotation. The colours represent different primers. The proportion of circRNA reads is calculated using CIRI-long. e, The identification of poly(A)+ and poly(A)− genes from Yang et al.16. Poly(A)+, poly(A)− and bimorphic genes were classified according to the relative abundance between the poly(A)+ and poly(A)− samples. f,g, The log-scaled gene expression levels of poly(A)+ and poly(A)− genes in combinatorial RT, oligo(dT) primed (f) and ONT direct RNA-seq data (g). Poly(A)+ and poly(A)− genes were classified according to the relative abundance between the poly(A)+ and poly(A)− samples from Yang et al. The colours represent the density of transcripts. h, Tracks of sequencing depth and reconstructed isoforms in the RPL34 and RPS2 loci. i, Tracks of sequencing depth and reconstructed isoforms in the MYC and SMARCE1 loci. The GENCODE v37 annotation and genomic coordinates are indicated above the tracks. Source numerical data are available in Source data.
