First-passage time approach to controlling noise in the timing of intracellular events

KR Ghusinga, JJ Dennehy… - Proceedings of the …, 2017 - National Acad Sciences
In the noisy cellular environment, gene products are subject to inherent random fluctuations
in copy numbers over time. How cells ensure precision in the timing of key intracellular …

Event timing at the single-cell level

E Yurkovsky, I Nachman - Briefings in functional genomics, 2013 - academic.oup.com
The timing of a cellular event often hides critical information on the process leading to the
event. Our ability to measure event times in single cells along with other quantities allow us …

Dissecting timing variability in yeast meiosis

I Nachman, A Regev, S Ramanathan - Cell, 2007 - cell.com
Cell-to-cell variability in the timing of cell-fate changes can be advantageous for a
population of single-celled organisms growing in a fluctuating environment. We study timing …

Stochastic timing in gene expression for simple regulatory strategies

AD Co, MC Lagomarsino, M Caselle… - Nucleic acids …, 2017 - academic.oup.com
Timing is essential for many cellular processes, from cellular responses to external stimuli to
the cell cycle and circadian clocks. Many of these processes are based on gene expression …

The timing of transcriptional regulation in synthetic gene circuits

YY Cheng, AJ Hirning, K Josić… - ACS synthetic biology, 2017 - ACS Publications
Transcription factors and their target promoters are central to synthetic biology. By arranging
these components into novel gene regulatory circuits, synthetic biologists have been able to …

The low noise limit in gene expression

RD Dar, BS Razooky, LS Weinberger, CD Cox… - PloS one, 2015 - journals.plos.org
Protein noise measurements are increasingly used to elucidate biophysical parameters.
Unfortunately noise analyses are often at odds with directly measured parameters. Here we …

First passage time in post-transcriptional regulation by multiple small RNAs

K Biswas, A Ghosh - The European Physical Journal E, 2021 - Springer
The post-transcriptional regulation of a protein by multiple small RNA molecules has been
formulated as a stochastic process. An approximate solution of the master equation shows …

First passage time properties of miRNA-mediated protein translation

K Biswas, MK Jolly, A Ghosh - Journal of Theoretical Biology, 2021 - Elsevier
An important function of microRNAs in gene regulation is to repress the protein synthesis in
a multi-step process with implications in timing efficiency of the regulatory network. We …

Effect of gene-expression bursts on stochastic timing of cellular events

KR Ghusinga, A Singh - 2017 American Control Conference …, 2017 - ieeexplore.ieee.org
Gene expression is inherently a noisy process which manifests as cell-to-cell variability in
time evolution of proteins. Consequently, events that trigger at critical threshold levels of …

Feedback strategies for threshold crossing of protein levels at a prescribed time

C Nieto, KR Ghusinga, A Singh - 2022 30th Mediterranean …, 2022 - ieeexplore.ieee.org
The timing of diverse cellular processes is based on the instant when the concentration of
regulatory proteins crosses a critical threshold level. Hence, noise mechanisms inherent to …