A stochastic vs deterministic perspective on the timing of cellular events

L Ham, MA Coomer, K Öcal, R Grima… - Nature …, 2024 - nature.com
Cells are the fundamental units of life, and like all life forms, they change over time. Changes
in cell state are driven by molecular processes; of these many are initiated when molecule …

Single-cell approach reveals intercellular heterogeneity in phage-producing capacities

S Kannoly, G Oken, J Shadan, D Musheyev… - Microbiology …, 2023 - Am Soc Microbiol
Bacteriophage burst size is the average number of phage virions released from infected
bacterial cells, and its magnitude depends on the duration of an intracellular progeny …

Sequestration of gene products by decoys enhances precision in the timing of intracellular events

K Biswas, S Dey, A Singh - Scientific Reports, 2024 - nature.com
Expressed gene products often interact ubiquitously with binding sites at nucleic acids and
macromolecular complexes, known as decoys. The binding of transcription factors (TFs) to …

[HTML][HTML] Characterizing the role of autaptic feedback in enhancing precision of neuronal firing times

Z Vahdat, O Gambrell, A Singh - bioRxiv, 2023 - ncbi.nlm.nih.gov
In a chemical synapse, information flow occurs via the release of neurotransmitters from a
presynaptic neuron that triggers an Action potential (AP) in the postsynaptic neuron. At its …

Maintenance of steady-state mRNA levels by a microRNA-based feed forward loop in the presence of stochastic gene expression noise

I Zabaikina, P Bokes - European Journal of Applied Mathematics, 2024 - cambridge.org
All vital functions of living cells rely on the production of various functional molecules
through gene expression. The production periods are burst-like and stochastic due to the …

Stochastic analysis of frequency bandwidth and noise attenuation in neurotransmission

Z Vahdat, A Singh - bioRxiv, 2022 - biorxiv.org
Action potential (AP)-triggered neurotransmitter release forms the key basis of inter-neuronal
communication. We present a stochastic hybrid system model that captures the release of …

Molecular Sequestration Enhances Precision in Timing of Intracellular Events

K Biswas, S Dey, A Singh - bioRxiv, 2024 - biorxiv.org
Expressed gene products often interact ubiquitously with binding sites at nucleic acids and
macromolecular complexes, known as decoys. Binding of transcription factors (TFs) to …

[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 …

Unraveling Cellular Dynamics Through Stochastic Hybrid Models for Biomolecular and Neuronal Circuits

Z Vahdat - 2024 - search.proquest.com
Living cells exhibit significant stochastic fluctuations due to low molecular counts and
inherently random biochemical processes. Leveraging stochastic models, we aim to unravel …

[PDF][PDF] Controlling Biomolecular Timekeeping via Regulated Gene Product Degradation

S Rezaee, C Nieto, A Singh - css.paperplaza.net
Numerous biological timing mechanisms are associated with the duration required for key
regulatory molecules to reach critical threshold levels. Recent studies have mainly explored …