The Mediator complex as a master regulator of transcription by RNA polymerase II

WF Richter, S Nayak, J Iwasa, DJ Taatjes - Nature Reviews Molecular …, 2022 - nature.com
The Mediator complex, which in humans is 1.4 MDa in size and includes 26 subunits,
controls many aspects of RNA polymerase II (Pol II) function. Apart from its size, a defining …

Pioneer transcription factors initiating gene network changes

KS Zaret - Annual review of genetics, 2020 - annualreviews.org
Pioneer transcription factors have the intrinsic biochemical ability to scan partial DNA
sequence motifs that are exposed on the surface of a nucleosome and thus access silent …

[HTML][HTML] Structure and mechanism of the RNA polymerase II transcription machinery

AC Schier, DJ Taatjes - Genes & development, 2020 - genesdev.cshlp.org
Abstract RNA polymerase II (Pol II) transcribes all protein-coding genes and many
noncoding RNAs in eukaryotic genomes. Although Pol II is a complex, 12-subunit enzyme, it …

Enhancer selectivity in space and time: from enhancer–promoter interactions to promoter activation

JH Yang, AS Hansen - Nature Reviews Molecular Cell Biology, 2024 - nature.com
The primary regulators of metazoan gene expression are enhancers, originally functionally
defined as DNA sequences that can activate transcription at promoters in an orientation …

Transcription in living cells: molecular mechanisms of bursting

J Rodriguez, DR Larson - Annual review of biochemistry, 2020 - annualreviews.org
Transcription in several organisms from certain bacteria to humans has been observed to be
stochastic in nature: toggling between active and inactive states. Periods of active nascent …

[HTML][HTML] Mechanical regulation of transcription: recent advances

K Wagh, M Ishikawa, DA Garcia, DA Stavreva… - Trends in cell …, 2021 - cell.com
Mechanotransduction is the ability of a cell to sense mechanical cues from its
microenvironment and convert them into biochemical signals to elicit adaptive transcriptional …

What is a transcriptional burst?

E Tunnacliffe, JR Chubb - Trends in Genetics, 2020 - cell.com
The idea that gene activity can be discontinuous will not surprise many biologists–many
genes are restricted in when and where they can be expressed. Yet during the past 15 …

Transcription factor dynamics: one molecule at a time

K Wagh, DA Stavreva, A Upadhyaya… - Annual Review of Cell …, 2023 - annualreviews.org
Cells must tightly regulate their gene expression programs and yet rapidly respond to acute
biochemical and biophysical cues within their environment. This information is transmitted to …

An intrinsically disordered region-mediated confinement state contributes to the dynamics and function of transcription factors

DA Garcia, TA Johnson, DM Presman, G Fettweis… - Molecular cell, 2021 - cell.com
Transcription factors (TFs) regulate gene expression by binding to specific consensus motifs
within the local chromatin context. The mechanisms by which TFs navigate the nuclear …

[HTML][HTML] Merging established mechanisms with new insights: condensates, hubs, and the regulation of RNA polymerase II transcription

M Palacio, DJ Taatjes - Journal of Molecular Biology, 2022 - Elsevier
The regulation of RNA polymerase II (pol II) transcription requires a complex and context-
specific array of proteins and protein complexes, as well as nucleic acids and metabolites …