Establishment of H3K9-methylated heterochromatin and its functions in tissue differentiation and maintenance

J Padeken, SP Methot, SM Gasser - Nature Reviews Molecular Cell …, 2022 - nature.com
Heterochromatin is characterized by dimethylated or trimethylated histone H3 Lys9
(H3K9me2 or H3K9me3, respectively) and is found at transposable elements, satellite …

Roles of transposable elements in the regulation of mammalian transcription

R Fueyo, J Judd, C Feschotte, J Wysocka - Nature reviews Molecular …, 2022 - nature.com
Transposable elements (TEs) comprise about half of the mammalian genome. TEs often
contain sequences capable of recruiting the host transcription machinery, which they use to …

Cohesin and CTCF control the dynamics of chromosome folding

P Mach, PI Kos, Y Zhan, J Cramard, S Gaudin… - Nature …, 2022 - nature.com
In mammals, interactions between sequences within topologically associating domains
enable control of gene expression across large genomic distances. Yet it is unknown how …

Dynamics of CTCF-and cohesin-mediated chromatin looping revealed by live-cell imaging

M Gabriele, HB Brandão, S Grosse-Holz, A Jha… - Science, 2022 - science.org
Animal genomes are folded into loops and topologically associating domains (TADs) by
CTCF and loop-extruding cohesins, but the live dynamics of loop formation and stability …

RNA polymerase II dynamics shape enhancer–promoter interactions

G Barshad, JJ Lewis, AG Chivu, A Abuhashem… - Nature …, 2023 - nature.com
How enhancers control target gene expression over long genomic distances remains an
important unsolved problem. Here we investigated enhancer–promoter communication by …

A framework for understanding the functions of biomolecular condensates across scales

AS Lyon, WB Peeples, MK Rosen - Nature Reviews Molecular Cell …, 2021 - nature.com
Biomolecular condensates are found throughout eukaryotic cells, including in the nucleus, in
the cytoplasm and on membranes. They are also implicated in a wide range of cellular …

Genome folding through loop extrusion by SMC complexes

IF Davidson, JM Peters - Nature reviews Molecular cell biology, 2021 - nature.com
Genomic DNA is folded into loops and topologically associating domains (TADs), which
serve important structural and regulatory roles. It has been proposed that these genomic …

Region Capture Micro-C reveals coalescence of enhancers and promoters into nested microcompartments

VY Goel, MK Huseyin, AS Hansen - Nature genetics, 2023 - nature.com
Although enhancers are central regulators of mammalian gene expression, the mechanisms
underlying enhancer–promoter (EP) interactions remain unclear. Chromosome …

Single-cell CUT&Tag profiles histone modifications and transcription factors in complex tissues

M Bartosovic, M Kabbe, G Castelo-Branco - Nature biotechnology, 2021 - nature.com
In contrast to single-cell approaches for measuring gene expression and DNA accessibility,
single-cell methods for analyzing histone modifications are limited by low sensitivity and …

The spatial organization of transcriptional control

A Hafner, A Boettiger - Nature Reviews Genetics, 2023 - nature.com
In animals, the sequences for controlling gene expression do not concentrate just at the
transcription start site of genes, but are frequently thousands to millions of base pairs distal …