Long-range enhancer–promoter contacts in gene expression control

S Schoenfelder, P Fraser - Nature Reviews Genetics, 2019 - nature.com
Spatiotemporal gene expression programmes are orchestrated by transcriptional
enhancers, which are key regulatory DNA elements that engage in physical contacts with …

The role of 3D genome organization in development and cell differentiation

H Zheng, W Xie - Nature reviews Molecular cell biology, 2019 - nature.com
In eukaryotes, the genome does not exist as a linear molecule but instead is hierarchically
packaged inside the nucleus. This complex genome organization includes multiscale …

Towards a comprehensive catalogue of validated and target-linked human enhancers

M Gasperini, JM Tome, J Shendure - Nature Reviews Genetics, 2020 - nature.com
The human gene catalogue is essentially complete, but we lack an equivalently vetted
inventory of bona fide human enhancers. Hundreds of thousands of candidate enhancers …

The role of transcription in shaping the spatial organization of the genome

B van Steensel, EEM Furlong - Nature reviews Molecular cell biology, 2019 - nature.com
The spatial organization of the genome into compartments and topologically associated
domains can have an important role in the regulation of gene expression. But could gene …

Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity

JM Alexander, J Guan, B Li, L Maliskova, M Song… - elife, 2019 - elifesciences.org
Enhancers are important regulatory elements that can control gene activity across vast
genetic distances. However, the underlying nature of this regulation remains obscured …

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 …

Evaluating enhancer function and transcription

A Field, K Adelman - Annual review of biochemistry, 2020 - annualreviews.org
Cell-type-and condition-specific profiles of gene expression require coordination between
protein-coding gene promoters and cis-regulatory sequences called enhancers. Enhancers …

DOT1L inhibition reveals a distinct subset of enhancers dependent on H3K79 methylation

L Godfrey, NT Crump, R Thorne, IJ Lau… - Nature …, 2019 - nature.com
Enhancer elements are a key regulatory feature of many important genes. Several general
features including the presence of specific histone modifications are used to demarcate …

Polymer simulations of heteromorphic chromatin predict the 3D folding of complex genomic loci

A Buckle, CA Brackley, S Boyle, D Marenduzzo… - Molecular cell, 2018 - cell.com
Chromatin folded into 3D macromolecular structures is often analyzed by chromosome
conformation capture (3C) and fluorescence in situ hybridization (FISH) techniques, but …

A tissue-specific self-interacting chromatin domain forms independently of enhancer-promoter interactions

JM Brown, NA Roberts, B Graham, D Waithe… - Nature …, 2018 - nature.com
Self-interacting chromatin domains encompass genes and their cis-regulatory elements;
however, the three-dimensional form a domain takes, whether this relies on enhancer …