Fig. 5
Agreement between the expression level estimated computationally from RNA-seq data and those measured with an independent experimental method. a and b Abundances of 3′ end processing sites in two independent samples (circles: replicate 1, triangles: replicate 2) of human Jurkat (a) or murine NIH/3T3 cells (b) were quantified with A-seq-2. Based on RNA-seq data obtained the same cell cultures, the abundances of transcripts ending at these processing sites were estimated with each of the indicated methods and aggregated per processing site. 3′ end processing site estimates were further aggregated per gene. The agreement between A-seq-2- and RNA-seq-based expression estimates was computed as Spearman correlation coefficients (rs) for 3′ end processing sites, genes, and transcripts (when processing sites were associated with exactly one transcript). Refer to the main text and the Methods section for further details. c and d Similar to (a) and (b), but only gene expression level estimates were considered and Spearman correlation coefficients were computed independently for different classes of gene biotypes, both for the human (c) and mouse (d) data. Plotted data represent means of the Spearman correlation coefficients calculated for each of two replicates