The nuclear receptor superfamily: A structural perspective

ER Weikum, X Liu, EA Ortlund - Protein Science, 2018 - Wiley Online Library
Nuclear receptors (NRs) are a family of transcription factors that regulate numerous
physiological processes such as metabolism, reproduction, inflammation, as well as the …

[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 …

A general method to optimize and functionalize red-shifted rhodamine dyes

JB Grimm, AN Tkachuk, L Xie, H Choi, B Mohar… - Nature …, 2020 - nature.com
Expanding the palette of fluorescent dyes is vital to push the frontier of biological imaging.
Although rhodamine dyes remain the premier type of small-molecule fluorophore owing to …

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 …

Live‐cell imaging reveals the interplay between transcription factors, nucleosomes, and bursting

BT Donovan, A Huynh, DA Ball, HP Patel… - The EMBO …, 2019 - embopress.org
Transcription factors show rapid and reversible binding to chromatin in living cells, and
transcription occurs in sporadic bursts, but how these phenomena are related is unknown …

Visualizing transcription factor dynamics in living cells

Z Liu, R Tjian - Journal of Cell Biology, 2018 - rupress.org
The assembly of sequence-specific enhancer-binding transcription factors (TFs) at cis-
regulatory elements in the genome has long been regarded as the fundamental mechanism …

Transcription dynamics and genome organization in the mammalian nucleus: Recent advances

K Wagh, DA Stavreva, GL Hager - Molecular Cell, 2024 - cell.com
Single-molecule tracking (SMT) has emerged as the dominant technology to investigate the
dynamics of chromatin-transcription factor (TF) interactions. How long a TF needs to bind to …

Labeling strategies matter for super-resolution microscopy: a comparison between HaloTags and SNAP-tags

RS Erdmann, SW Baguley, JH Richens, RF Wissner… - Cell chemical …, 2019 - cell.com
Super-resolution microscopy requires that subcellular structures are labeled with bright and
photostable fluorophores, especially for live-cell imaging. Organic fluorophores may help …

“Stripe” transcription factors provide accessibility to co-binding partners in mammalian genomes

Y Zhao, SV Vartak, A Conte, X Wang, DA Garcia… - Molecular cell, 2022 - cell.com
Regulatory elements activate promoters by recruiting transcription factors (TFs) to specific
motifs. Notably, TF-DNA interactions often depend on cooperativity with colocalized …