Fig. 2
From: TIRE-seq simplifies transcriptomics via integrated RNA capture and library preparation
Superior performance of TIRE-seq compared to Prime-seq in a high-throughput experiment. (a) Experimental design of the human T cell experiment. T cell subsets were isolated on day 0, followed by stimulation on day 1. CD4 and CD8 subsets were sorted at the indicated timepoints, and both Prime-seq and TIRE-seq were performed on the same inputs. (b) Mapping rates to genomic features for Prime-seq and TIRE-seq. Reads were downsampled to the same value. (c) Molecular efficiency comparison between Prime-seq and TIRE-seq. Reads were downsampled to the same value. (d) Comparison of gene expression variability between Prime-seq and TIRE-seq. Reads were downsampled to the same value, with no gene filtering applied. (e) Heatmap showing logCPM values for the top 15 differentially expressed genes between CD4 and CD8 T cells at the day 2 timepoint. (f) logCPM values for the top six most variable genes over time during T cell stimulation. (g) Volcano plot of differentially expressed genes between day 2 and unstimulated (day 0) T cells in response to CD3 and CD28 stimulation. (h) Volcano plot of differentially expressed genes between day 15 and day 2 T cells in response to CD3 and CD28 stimulation.
