%0 Journal Article
%A Liu, Haiyue
%A Arsiè, Roberto
%A Schwabe, Daniel
%A Schilling, Marcel
%A Minia, Igor
%A Alles, Jonathan
%A Boltengagen, Anastasiya
%A Kocks, Christine
%A Falcke, Martin
%A Friedman, Nir
%A Landthaler, Markus
%A Rajewsky, Nikolaus
%T SLAM‐Drop ‐seq reveals mRNA kinetic rates throughout the cell cycle
%J Molecular systems biology
%V 19
%@ 1744-4292
%C Heidelberg
%I EMBO Press
%M DKFZ-2023-01795
%P e11427
%D 2023
%Z (2023)19:e11427
%X RNA abundance is tightly regulated in eukaryotic cells by modulating the kinetic rates of RNA production, processing, and degradation. To date, little is known about time-dependent kinetic rates during dynamic processes. Here, we present SLAM-Drop-seq, a method that combines RNA metabolic labeling and alkylation of modified nucleotides in methanol-fixed cells with droplet-based sequencing to detect newly synthesized and preexisting mRNAs in single cells. As a first application, we sequenced 7280 HEK293 cells and calculated gene-specific kinetic rates during the cell cycle using the novel package Eskrate. Of the 377 robust-cycling genes that we identified, only a minor fraction is regulated solely by either dynamic transcription or degradation (6 and 4
%F PUB:(DE-HGF)16
%9 Journal Article
%R 10.15252/msb.202211427
%U https://inrepo02.dkfz.de/record/282506