Genome-wide dynamics of RNA synthesis, processing, and degradation without RNA metabolic labeling.

ABSTRACT: The quantification of the kinetic rates of RNA synthesis, processing, and degradation are largely based on the integrative analysis of total and nascent transcription, the latter being quantified through RNA metabolic labeling. We developed INSPEcT-, a computational method based on the mathematical modeling of premature and mature RNA expression that is able to quantify kinetic rates from steady-state or time course total RNA-seq data without requiring any information on nascent transcripts. Our approach outperforms available solutions, closely recapitulates the kinetic rates obtained through RNA metabolic labeling, improves the ability to detect changes in transcript half-lives, reduces the cost and complexity of the experiments, and can be adopted to study experimental conditions in whic

SUBMITTER: Furlan M 

PROVIDER: S-EPMC7605262 | biostudies-literature | 2020 Oct

REPOSITORIES: biostudies-literature