Gene-expression bimodality, as a potential mechanism generating phenotypic cell diversity,
can enhance the survival of cells in a fluctuating environment. Previous studies have shown …

The genome contains several high-affinity non-functional binding sites for transcription
factors (TFs) creating a hidden and unexplored layer of gene regulation. We investigate the …

Predicting gene expression from DNA sequence remains a major goal in the field of gene
regulation. A challenge to this goal is the connectivity of the network, whose role in altering …

In a stochastic process, noise often modifies the picture offered by the mean-field dynamics.
In particular, when there is an absorbing state, the noise erases a stable fixed point of the …

Chromatin regulation is a key pathway cells use to regulate gene expression in response to
temporal stimuli, and is becoming widely used as a platform for synthetic biology …

Extrinsic noise-induced transitions to bimodal dynamics have been largely investigated in a
variety of chemical, physical, and biological systems. In the standard approach in physical …

Expressed gene products often interact ubiquitously with binding sites at nucleic acids and
macromolecular complexes, known as decoys. Binding of transcription factors (TFs) to …

Transcriptional regulation is a key pathway cells use to regulate gene expression in
response to temporal signaling, and is becoming widely used as a platform for synthetic …

We consider a generic class of gene circuits affected by nonlinear extrinsic noise. To
address this nonlinearity we introduce a general perturbative methodology based on …

The positive feedback loop with cooperative binding of the auto-regulatory transcription
factor molecules, is the simplest form of a genetic regulatory network (GRN) that can exhibit …