Extended Data Fig. 1: Estimation of 4sU/U ratio of nascent mRNA fragments at different time-points.
From: Nascent Ribo-Seq measures ribosomal loading time and reveals kinetic impact on ribosome density
(a) Following nRibo-Seq in RAW264.7 macrophages, the efficiency of NaIO4-mediated conversion of 4sU to C was determined, for each sample separately, with a spike-in RNA containing a 4sU at position 13. The T-to-C rates along the spike-in RNA are shown for one sample. (b) T-to-C rates at position 13 of the spike-in RNA in all samples as determined from Illumina sequencing. (c) The estimated 4sU/U ratio within nascent reads of experiment 1 as calculated from the conversion efficiency and the T-to-C transition probability, separately for every population of reads based on the number of Ts in the reference. (d) The estimated 4sU/U rate within nascent reads of experiment 2.
