[HTML][HTML] The formation of chromatin domains involves a primary step based on the 3-D structure of DNA

G Bernardi - Scientific Reports, 2018 - nature.com
The general model presented here for the formation of chromatin domains, LADs and TADs,
is primarily based on the 3-D structures of the corresponding DNA sequences, the GC-poor …

[HTML][HTML] The short-sequence design of DNA and its involvement in the 3-D structure of the genome

G Lamolle, V Sabbia, H Musto, G Bernardi - Scientific Reports, 2018 - nature.com
Recent investigations have shown that isochores are characterized by a 3-D structure which
is primarily responsible for the topology of chromatin domains. More precisely, an analysis of …

Biochemically distinct cohesin complexes mediate positioned loops between CTCF sites and dynamic loops within chromatin domains

Y Liu, J Dekker - BioRxiv, 2021 - biorxiv.org
The ring-like cohesin complex mediates sister chromatid cohesion by encircling pairs of
sister chromatids. Cohesin also extrudes loops along chromatids. Whether the two activities …

Chromatin loops stack up

D Clyde - Nature Reviews Genetics, 2023 - nature.com
Chromatin loops stack up | Nature Reviews Genetics Skip to main content Thank you for visiting
nature.com. You are using a browser version with limited support for CSS. To obtain the best …

CTCF, WAPL and PDS5 proteins control the formation of TADs and loops by cohesin

G Wutz, C Varnai, K Nagasaka, DA Cisneros… - Biorxiv, 2017 - biorxiv.org
Mammalian genomes are organized into compartments, topologically-associating domains
(TADs) and loops to facilitate gene regulation and other chromosomal functions …

Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins

G Wutz, C Várnai, K Nagasaka, DA Cisneros… - The EMBO …, 2017 - embopress.org
Mammalian genomes are spatially organized into compartments, topologically associating
domains (TADs), and loops to facilitate gene regulation and other chromosomal functions …

CTCF–CTCF loops and intra-TAD interactions show differential dependence on cohesin ring integrity

Y Liu, J Dekker - Nature cell biology, 2022 - nature.com
The ring-like cohesin complex mediates sister-chromatid cohesion by encircling pairs of
sister chromatids. Cohesin also extrudes loops along chromatids. Whether the two activities …

CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention

EM Pugacheva, N Kubo, D Loukinov… - Proceedings of the …, 2020 - National Acad Sciences
The DNA-binding protein CCCTC-binding factor (CTCF) and the cohesin complex function
together to shape chromatin architecture in mammalian cells, but the molecular details of …

Rapid depletion of CTCF and cohesin proteins reveals dynamic features of chromosome architecture

NQ Liu, M Magnitov, M Schijns, T van Schaik… - bioRxiv, 2021 - biorxiv.org
The interphase genome is mainly shaped by cohesin-mediated loop extrusion and cohesin-
independent compartmentalization. Extrusion is a dynamic process of cohesin loading, loop …

[HTML][HTML] Cohesin and CTCF complexes mediate contacts in chromatin loops depending on nucleosome positions

A Attou, T Zülske, G Wedemann - Biophysical Journal, 2022 - cell.com
The spatial organization of the eukaryotic genome plays an important role in regulating
transcriptional activity. In the nucleus, chromatin forms loops that assemble into fundamental …