Cellular responses to TNF are inherently heterogeneous within an isogenic cell population
and across different cell types. TNF promotes cell survival by activating pro-inflammatory NF …

Collective states of inanimate particles self-assemble through physical interactions and
thermal motion. Despite some phenomenological resemblance, including signatures of …

The snapshot distribution of mRNA counts per cell can be measured using single-molecule
fluorescence in situ hybridization or single-cell RNA sequencing. These distributions are …

Motivation Cell function is regulated by gene regulatory networks (GRNs) defined by protein-
mediated interaction between constituent genes. Despite advances in experimental …

The circadian (∼ 24h) clock is based on a negative-feedback loop centered around the
PERIOD protein (PER), translated in the cytoplasm and then enters the nucleus to repress its …

The transduction time between signal initiation and final response provides valuable
information on the underlying signaling pathway, including its speed and precision …

The mRNA life cycle is a complex biochemical process, involving transcription initiation,
elongation, termination, splicing, and degradation. Each of these molecular events is …

Stochastic models of gene expression are typically formulated using the chemical master
equation, which can be solved exactly or approximately using a repertoire of analytical …

Genetic oscillations are generated by delayed transcriptional negative feedback loops,
wherein repressor proteins inhibit their own synthesis after a temporal production delay. This …

Engineering biology relies on the accurate prediction of cell responses. However, making
these predictions is challenging for a variety of reasons, including the stochasticity of …