[HTML][HTML] How to rule the nucleus: divide et impera

I Solovei, K Thanisch, Y Feodorova - Current opinion in cell biology, 2016 - Elsevier
Genome-wide molecular studies have provided new insights into the organization of nuclear
chromatin by revealing the presence of chromatin domains of differing transcriptional …

Cohesin loss eliminates all loop domains

SSP Rao, SC Huang, BG St Hilaire, JM Engreitz… - Cell, 2017 - cell.com
The human genome folds to create thousands of intervals, called" contact domains," that
exhibit enhanced contact frequency within themselves." Loop domains" form because of …

Decreased enhancer-promoter proximity accompanying enhancer activation

NS Benabdallah, I Williamson, RS Illingworth, L Kane… - Molecular cell, 2019 - cell.com
Enhancers can regulate the promoters of their target genes over very large genomic
distances. It is widely assumed that mechanisms of enhancer action involve the …

A pliable mediator acts as a functional rather than an architectural bridge between promoters and enhancers

L El Khattabi, H Zhao, J Kalchschmidt, N Young… - Cell, 2019 - cell.com
While Mediator plays a key role in eukaryotic transcription, little is known about its
mechanism of action. This study combines CRISPR-Cas9 genetic screens, degron assays …

Hypoxic regulation of gene transcription and chromatin: cause and effect

JD Kindrick, DR Mole - International Journal of Molecular Sciences, 2020 - mdpi.com
Cellular responses to low oxygen (hypoxia) are fundamental to normal physiology and to the
pathology of many common diseases. Hypoxia-inducible factor (HIF) is central to this by …

Shh and ZRS enhancer colocalisation is specific to the zone of polarising activity

I Williamson, LA Lettice, RE Hill… - Development, 2016 - journals.biologists.com
Limb-specific Shh expression is regulated by the (∼ 1 Mb distant) ZRS enhancer. In the
mouse, limb bud-restricted spatiotemporal Shh expression occurs from∼ E10 to E11. 5 at …

Hit and run versus long-term activation of PARP-1 by its different domains fine-tunes nuclear processes

C Thomas, Y Ji, C Wu, H Datz… - Proceedings of the …, 2019 - National Acad Sciences
Poly (ADP-ribose) polymerase 1 (PARP-1) is a multidomain multifunctional nuclear enzyme
involved in the regulation of the chromatin structure and transcription. PARP-1 consists of …

Allosteric conformational ensembles have unlimited capacity for integrating information

JW Biddle, R Martinez-Corral, F Wong, J Gunawardena - Elife, 2021 - elifesciences.org
Integration of binding information by macromolecular entities is fundamental to cellular
functionality. Recent work has shown that such integration cannot be explained by pairwise …

Phase separation and transcription regulation: are super‐enhancers and locus control regions primary sites of transcription complex assembly?

A Gurumurthy, Y Shen, EM Gunn, J Bungert - BioEssays, 2019 - Wiley Online Library
It is proposed that the multiple enhancer elements associated with locus control regions and
super‐enhancers recruit RNA polymerase II and efficiently assemble elongation competent …

Multiomic analysis of cohesin reveals that ZBTB transcription factors contribute to chromatin interactions

R Wang, Q Xu, C Wang, K Tian, H Wang… - Nucleic Acids …, 2023 - academic.oup.com
One bottleneck in understanding the principles of 3D chromatin structures is caused by the
paucity of known regulators. Cohesin is essential for 3D chromatin organization, and its …