The Perseus computational platform for comprehensive analysis of (prote) omics data
A main bottleneck in proteomics is the downstream biological analysis of highly multivariate
quantitative protein abundance data generated using mass-spectrometry-based analysis …
quantitative protein abundance data generated using mass-spectrometry-based analysis …
An improved MS2 system for accurate reporting of the mRNA life cycle
The MS2–MCP system enables researchers to image multiple steps of the mRNA life cycle
with high temporal and spatial resolution. However, for short-lived mRNAs, the tight binding …
with high temporal and spatial resolution. However, for short-lived mRNAs, the tight binding …
Alterations of cell cycle genes in cancer: unmasking the role of cancer stem cells
The cell cycle is a complex and strictly controlled process, consisting of different phases.
Cell cycle regulation depends on phase-specific transcriptions of cell cycle genes. The …
Cell cycle regulation depends on phase-specific transcriptions of cell cycle genes. The …
Central dogma rates and the trade-off between precision and economy in gene expression
Steady-state protein abundance is set by four rates: transcription, translation, mRNA decay
and protein decay. A given protein abundance can be obtained from infinitely many …
and protein decay. A given protein abundance can be obtained from infinitely many …
SLAM‐Drop‐seq reveals mRNA kinetic rates throughout the cell cycle
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 …
RNA production, processing, and degradation. To date, little is known about time‐dependent …
High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies
Cells control dynamic transitions in transcript levels by regulating transcription, processing,
and/or degradation through an integrated regulatory strategy. Here, we combine RNA …
and/or degradation through an integrated regulatory strategy. Here, we combine RNA …
The balance between cell cycle arrest and cell proliferation: control by the extracellular matrix and by contact inhibition
To understand the dynamics of the cell cycle, we need to characterize the balance between
cell cycle arrest and cell proliferation, which is often deregulated in cancers. We address this …
cell cycle arrest and cell proliferation, which is often deregulated in cancers. We address this …
YTHDF2 promotes mitotic entry and is regulated by cell cycle mediators
The N 6-methyladenosine (m6A) modification regulates mRNA stability and translation.
Here, we show that transcriptomic m6A modification can be dynamic and the m6A reader …
Here, we show that transcriptomic m6A modification can be dynamic and the m6A reader …
Time-resolved single-cell sequencing identifies multiple waves of mRNA decay during the mitosis-to-G1 phase transition
Accurate control of the cell cycle is critical for development and tissue homeostasis, and
requires precisely timed expression of many genes. Cell cycle gene expression is regulated …
requires precisely timed expression of many genes. Cell cycle gene expression is regulated …
Stochastic simulation of biomolecular networks in dynamic environments
Simulation of biomolecular networks is now indispensable for studying biological systems,
from small reaction networks to large ensembles of cells. Here we present a novel approach …
from small reaction networks to large ensembles of cells. Here we present a novel approach …