From endogenous to synthetic microRNA-mediated regulatory circuits: An overview

E Ferro, C Enrico Bena, S Grigolon, C Bosia - Cells, 2019 - mdpi.com
MicroRNAs are short non-coding RNAs that are evolutionarily conserved and are pivotal
post-transcriptional mediators of gene regulation. Together with transcription factors and …

[HTML][HTML] microRNA-mediated noise processing in cells: A fight or a game?

E Ferro, CE Bena, S Grigolon, C Bosia - Computational and Structural …, 2020 - Elsevier
In the past decades, microRNAs (miRNA) have much attracted the attention of researchers
at the interface between life and theoretical sciences for their involvement in post …

Controlling noisy expression through auto regulation of burst frequency and protein stability

P Bokes, A Singh - Hybrid Systems Biology: 6th International Workshop …, 2019 - Springer
Protein levels can be controlled by regulating protein synthesis or half life. The aim of this
paper is to investigate how introducing feedback in burst frequency or protein decay rate …

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 …

Analytical expressions and physics for single-cell mRNA distributions of the lac operon of E. coli

K Choudhary, A Narang - Biophysical journal, 2019 - cell.com
Mechanistic models of stochastic gene expression are of considerable interest, but their
complexity often precludes tractable analytical expressions for messenger RNA (mRNA) and …

Stationary distributions and metastable behaviour for self-regulating proteins with general lifetime distributions

C Çelik, P Bokes, A Singh - … on Computational Methods in Systems Biology, 2020 - Springer
Regulatory molecules such as transcription factors are often present at relatively small copy
numbers in living cells. The copy number of a particular molecule fluctuates in time due to …

Stochasticity in biomolecular systems with sequestration mechanisms

A Biswas, C Nieto, P Bokes, A Singh - IFAC-PapersOnLine, 2024 - Elsevier
We study how sequestration mechanisms, such as protein binding to decoy sites and the
reversible formation of phase-separated condensates, alter the statistics of protein levels. To …

Coupled reaction networks for noise suppression

F Xiao, M Fang, J Yan, JC Doyle - 2019 American Control …, 2019 - ieeexplore.ieee.org
Noise is intrinsic to many important regulatory processes in living cells, and often forms
obstacles to be overcome for reliable biological functions. However, due to stochastic birth …

[PDF][PDF] Invariance of Poisson statistics in molecular counts to sequestration mechanisms

We study how sequestration mechanisms, such as protein binding to decoy sites and the
reversible formation of phaseseparated condensates, alter the statistics of protein levels. To …

Analytical expressions and physical principles for single-cell mRNA distributions of the lac operon of Escherichia coli

K Choudhary, A Narang - bioRxiv, 2019 - biorxiv.org
Mechanistic models of stochastic gene expression are of considerable interest, but their
complexity often precludes tractable analytical expressions for mRNA and protein …