Biochemical reactions are intrinsically stochastic, leading to variation in the production of
mRNAs and proteins within cells. In the scientific literature, this source of variation is typically …

The remarkable ability of Mycobacterium tuberculosis to survive attacks from the host
immune response and drug treatment is due to the resilience of a few bacilli rather than a …

Chromosome structure in mammals is thought to regulate transcription by modulating three-
dimensional interactions between enhancers and promoters, notably through CTCF …

We introduce APEX-seq, a method for RNA sequencing based on direct proximity labeling of
RNA using the peroxidase enzyme APEX2. APEX-seq in nine distinct subcellular locales …

INTRODUCTION Fluctuations have long been known to dynamically shape microstate
distributions in physical systems. Throughout engineering,“dithering” approaches that …

The core components of the nuclear RNA export pathway are thought to be required for
export of virtually all polyadenylated RNAs. Here, we depleted different proteins that act in …

Here we present biVI, which combines the variational autoencoder framework of scVI with
biophysical models describing the transcription and splicing kinetics of RNA molecules. We …

Transcriptional rates are often estimated by fitting the distribution of mature mRNA numbers
measured using smFISH (single molecule fluorescence in situ hybridization) with the …

Gene expression variability in mammalian systems plays an important role in physiological
and pathophysiological conditions. This variability can come from differential regulation …

Mammalian cells have developed dedicated molecular mechanisms to tightly control
expression levels of their genes where the specific transcriptomic signature across all genes …