[HTML][HTML] Eukaryotic transcriptional dynamics: from single molecules to cell populations

A Coulon, CC Chow, RH Singer, DR Larson - Nature reviews genetics, 2013 - nature.com
Transcriptional regulation is achieved through combinatorial interactions between regulatory
elements in the human genome and a vast range of factors that modulate the recruitment …

Strategies to overcome the challenges of low or no expression of heterologous proteins in Escherichia coli

R Jiang, S Yuan, Y Zhou, Y Wei, F Li, M Wang… - Biotechnology …, 2024 - Elsevier
Protein expression is a critical process in diverse biological systems. For Escherichia coli, a
widely employed microbial host in industrial catalysis and healthcare, researchers often face …

[HTML][HTML] General properties of transcriptional time series in Escherichia coli

L So, A Ghosh, C Zong, LA Sepúlveda, R Segev… - Nature …, 2011 - nature.com
Gene activity is described by the time series of discrete, stochastic mRNA production events.
This transcriptional time series shows intermittent, bursty behavior. One consequence of this …

Efficient translation initiation dictates codon usage at gene start

K Bentele, P Saffert, R Rauscher, Z Ignatova… - Molecular systems …, 2013 - embopress.org
The genetic code is degenerate; thus, protein evolution does not uniquely determine the
coding sequence. One of the puzzles in evolutionary genetics is therefore to uncover …

Size-dependent increase in RNA polymerase II initiation rates mediates gene expression scaling with cell size

XM Sun, A Bowman, M Priestman, F Bertaux… - Current Biology, 2020 - cell.com
Cell size varies during the cell cycle and in response to external stimuli. This requires the
tight coordination, or" scaling," of mRNA and protein quantities with the cell volume in order …

Transcriptional bursting in gene expression: analytical results for general stochastic models

N Kumar, A Singh, RV Kulkarni - PLoS computational biology, 2015 - journals.plos.org
Gene expression in individual cells is highly variable and sporadic, often resulting in the
synthesis of mRNAs and proteins in bursts. Such bursting has important consequences for …

Dynamic gene expression and growth underlie cell-to-cell heterogeneity in Escherichia coli stress response

NMV Sampaio, CM Blassick… - Proceedings of the …, 2022 - National Acad Sciences
Cell-to-cell heterogeneity in gene expression and growth can have critical functional
consequences, such as determining whether individual bacteria survive or die following …

Effect of promoter architecture on the cell-to-cell variability in gene expression

A Sanchez, HG Garcia, D Jones… - PLoS computational …, 2011 - journals.plos.org
According to recent experimental evidence, promoter architecture, defined by the number,
strength and regulatory role of the operators that control transcription, plays a major role in …

A hierarchical regulatory network analysis of the vitamin D induced transcriptome reveals novel regulators and complete VDR dependency in monocytes

T Warwick, MH Schulz, S Günther, R Gilsbach… - Scientific reports, 2021 - nature.com
The transcription factor vitamin D receptor (VDR) is the high affinity nuclear target of the
biologically active form of vitamin D3 (1, 25 (OH) 2D3). In order to identify pure genomic …

Multiplexed gene control reveals rapid mRNA turnover

A Baudrimont, S Voegeli, EC Viloria, F Stritt… - Science …, 2017 - science.org
The rates of mRNA synthesis and decay determine the mRNA expression level. The two
processes are under coordinated control, which makes the measurements of these rates …