Extended Data Fig. 3: RNA and NTR velocities.
From: scSLAM-seq reveals core features of transcription dynamics in single cells
a, PCA computed on velocity values, on expression values projected 1 h into the future using velocity and the intron/exon count ratio for the scSLAM-seq data using the same set of genes as in Fig. 2a (uninfected, n = 2 replicates, 43 cells; infected, n = 2 replicates, 44 cells). b, PCA for the 10x data on the same set of genes as used for Fig. 2a on the basis of mature transcripts (exonic reads only; left) marginally separated uninfected from infected cells. By contrast, on the basis of the ratio of intronic/exonic reads (right), infected cells were almost perfectly separated from uninfected (right; uninfected, n = 2 replicates, 793 cells; infected, n = 2 replicates, 353 cells). c, As in Fig. 2d, except velocities were computed on the basis of degradation rates estimated from uninfected cells only; that is, not violating the steady-state assumption but supplying the class labels (violating the blind test of prediction). d, Scatterplot comparing NTRs with velocities from the 10x scRNA-seq data for down- and upregulated genes.
