A chemical kinetic basis for measuring translation initiation and elongation rates from ribosome profiling data.

ABSTRACT: Analysis methods based on simulations and optimization have been previously developed to estimate relative translation rates from next-generation sequencing data. Translation involves molecules and chemical reactions, hence bioinformatics methods consistent with the laws of chemistry and physics are more likely to produce accurate results. Here, we derive simple equations based on chemical kinetic principles to measure the translation-initiation rate, transcriptome-wide elongation rate, and individual codon translation rates from ribosome profiling experiments. Our methods reproduce the known rates from ribosome profiles generated from detailed simulations of translation. By applying our methods to data from S. cerevisiae and mouse embryonic stem cells, we find that the extracted rates rep

SUBMITTER: Sharma AK 

PROVIDER: S-EPMC6559674 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature