Comparison of cDTA with conventional methods. (A) Box plots of the expression distributions of the total and the labeled (newly synthesized) mRNA after cDTA normalization, obtained from the wild-type and the rpb1-1 mutant before, and 24 and 66 min after the shift to restrictive temperature. Transcriptional activity is roughly restored in both strains after 66 min. The global shifts in labeled expression are only slightly more pronounced in the rpb1-1 mutant, indicating a dominant role of heat shock in the profiles of rpb1-1. (B) Correlation analysis of mRNA half-life measurements. The heatmap shows pairwise Spearman correlation coefficients of half-life measurements (white: negative or zero correlation; purple: perfect correlation). The published half-life estimates except for Munchel et al. (2011) were obtained by experiments using transcriptional arrest. The estimates of Holstege et al. (1998), Wang et al. (2002), Grigull et al. (2004), and Shalem et al. (2008) were obtained using a yeast strain containing the Pol II temperature sensitive mutant rpb1-1. Dori-Bachash et al. (2011) used the transcription inhibitor 1,10-phenanthroline.
