Fig. 8
From: Molecular interactions between Hel2 and RNA supporting ribosome-associated quality control
mRNA binding by Hel2. a Abundance of protein-coding genes in Hel2 crosslinking and analysis of cDNA (CRAC) data sets (median of 6 data sets for each gene) compared to RiboSeq (1 data set; from ref. 43) and RNASeq (median of 3 data sets; from ref. 42). The latter two were from isogenic wild-type strains. All axes are in log2. Spearman correlation between abundances of protein-coding genes in RNASeq, Hel2 CRAC and RiboSeq (medians) is shown in the right panels. b Genes were grouped into quintiles according to Hel2 CRAC read counts, in hits per million per kilobase. These are plotted against the ratio of RiboSeq reads and RNASeq reads for each gene in the quintiles. Centre lines of box plots show the medians; box limits indicate the 25th and 75th percentiles; whiskers extend 1.5 times the interquartile range from the 25th and 75th percentiles, data points are plotted for outliers. c–e Metagene analysis of collapsed data sets performed for the subset of top 275 reproducibly Hel2-bound protein-coding genes with mRNA length of ≥500 nt. c, d Total reads mapped across open reading frames (ORFs) aligned by the translation start or stop codons. e Micro-deletions mapped across stop codons (smoothed data shown here, unsmoothed data shown in Supplementary Fig. 13). f, g RiboSeq footprints mapped across ORFs aligned by the translation start or stop codons. The values for “% reads” or “% deletions” shown are normalized to the sum of total Hel2 and no tag CRAC signal (c–e) or to the sum of all RiboSeq footprints (f, g) over the top reproducibly bound genes
