Single-cell RNA genomics technologies are revolutionizing biomedical science by profiling
single cells with unprecedented resolution, providing fundamental insights into the role of …

Recent experimental developments in genome-wide RNA quantification hold considerable
promise for systems biology. However, rigorously probing the biology of living cells requires …

We perform a thorough analysis of RNA velocity methods, with a view towards
understanding the suitability of the various assumptions underlying popular …

A central question in biology is whether variability between genetically identical cells
exposed to the same culture conditions is largely stochastic or deterministic. Using image …

Summary mRNA is thought to predominantly reside in the cytoplasm, where it is translated
and eventually degraded. Although nuclear retention of mRNA has a regulatory potential, it …

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 …

The question of how cell-to-cell differences in transcription rate affect RNA count
distributions is fundamental for understanding biological processes underlying transcription …

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

Transcription is an episodic process characterized by probabilistic bursts, but how the
transcriptional noise from these bursts is modulated by cellular physiology remains unclear …

Chemical reactions contain an inherent element of randomness, which presents itself as
noise that interferes with cellular processes and communication. Here we discuss the ability …