Extended Data Fig. 6: Ribosome pausing is distinct from changes in codon usage.
From: Single-cell Ribo-seq reveals cell cycle-dependent translational pausing
a, Frequency of arginine and leucine codons in histone genes compared to all other genes. Histone genes (light grey) are highly enriched in CGC and CGU codons compared to other genes. Histone genes were defined as those in HGNC gene group 864. In the box plots the middle line indicates the median, the box limits the first and third quartiles, and the whiskers the range. Each point represents a gene. b, Heat map of the fold change in codon occupancy for CGC and CGU codons in the ribosome active sites (top) and the expression of histone genes (bottom) in RPE-1 cells. The site-agnostic increases in CGC and CGU in RPF active sites are synchronous with the increase in translation of histone genes during late S phase (cluster 5, teal). The increases of CGC and CGU codons in all active sites is distinct from the pattern seen in the GAA site occupancies, where the increase is specific to the A site.
