[HTML][HTML] Noise suppression in stochastic genetic circuits using pid controllers

S Modi, S Dey, A Singh - PLoS Computational Biology, 2021 - journals.plos.org
Inside individual cells, protein population counts are subject to molecular noise due to low
copy numbers and the inherent probabilistic nature of biochemical processes. We …

Silent transcription intervals and translational bursting lead to diverse phenotypic switching

X Yang, S Luo, Z Zhang, Z Wang, T Zhou… - Physical Chemistry …, 2022 - pubs.rsc.org
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 …

Comparing feedback strategies for minimizing noise in gene expression event timing

Z Vahdat, KR Ghusinga, A Singh - 2021 29th Mediterranean …, 2021 - ieeexplore.ieee.org
Many cellular events occur when their corresponding regulatory proteins attain critical
thresholds. Can cells schedule such events with precision by controlling the dynamics of the …

Optimizing precision in cellular clocks through self-regulated accumulation of molecules

S Rezaee, C Nieto, A Singh - 2023 27th International …, 2023 - ieeexplore.ieee.org
The timing of cellular events is often determined by the instant when the level of a chemical
species crosses a threshold from an initial value of zero. To attenuate the inherent random …

Mixed-feedback architectures for precise event timing through stochastic accumulation of biomolecules

S Rezaee, C Nieto, A Singh - bioRxiv, 2023 - biorxiv.org
The timing of biochemical events is often determined by the accumulation of a protein or
chemical species to a critical threshold level. In a stochastic model, we define event timing …

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 …

Regulatory strategies to schedule threshold crossing of protein levels at a prescribed time

C Nieto, KR Ghusinga, A Singh - bioRxiv, 2022 - biorxiv.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 …

Controlling event timing precision for gene expression with external disturbances

KR Ghusinga, A Singh - 2020 59th IEEE Conference on …, 2020 - ieeexplore.ieee.org
Gene expression is inherently a stochastic process, leading to randomness in the timing of
events. A problem of interest is to understand how cells achieve temporal precision …

[PDF][PDF] Precision of Biomolecular Timekeeping Through Regulated Degradation

S Rezaee, C Nieto, A Singh - 2023 - osf.io
The timing of biochemical processes within cells is inextricably linked to the level of key
regulatory proteins crossing critical threshold levels. Recent research has primarily focused …

Regulating gene expression to achieve temporal precision

KR Ghusinga, A Singh - IFAC-PapersOnLine, 2021 - Elsevier
Cellular response to a stimulus is often triggered by accumulation of an appropriate gene
product up to a critical threshold. How cells regulate gene expression to achieve precision in …