Estimating RNA dynamics using one time point for one sample in a single-pulse metabolic labeling experiment.

ABSTRACT:

Background

Over the past decade, experimental procedures such as metabolic labeling for determining RNA turnover rates at the transcriptome-wide scale have been widely adopted and are now turning to single cell measurements. Several computational methods to estimate RNA synthesis, processing and degradation rates from such experiments have been suggested, but they all require several RNA sequencing samples. Here we present a method that can estimate those three rates from a single sample.

Methods

Our method relies on the analytical solution to the Zeisel model of RNA dynamics. It was validated on metabolic labeling experiments performed on mouse embryonic stem cells. Resulting degradation rates were compared both to previously published rates on the same system and to a stat

SUBMITTER: Hersch M 

PROVIDER: S-EPMC9034570 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature