TY  - JOUR
AU  - Liu, Haiyue
AU  - Arsiè, Roberto
AU  - Schwabe, Daniel
AU  - Schilling, Marcel
AU  - Minia, Igor
AU  - Alles, Jonathan
AU  - Boltengagen, Anastasiya
AU  - Kocks, Christine
AU  - Falcke, Martin
AU  - Friedman, Nir
AU  - Landthaler, Markus
AU  - Rajewsky, Nikolaus
TI  - SLAM‐Drop ‐seq reveals mRNA kinetic rates throughout the cell cycle
JO  - Molecular systems biology
VL  - 19
SN  - 1744-4292
CY  - Heidelberg
PB  - EMBO Press
M1  - DKFZ-2023-01795
SP  - e11427
PY  - 2023
N1  - (2023)19:e11427
AB  - 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
LB  - PUB:(DE-HGF)16
DO  - DOI:10.15252/msb.202211427
UR  - https://inrepo02.dkfz.de/record/282506
ER  -