Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells

B Bintu, LJ Mateo, JH Su, NA Sinnott-Armstrong… - Science, 2018 - science.org
INTRODUCTION Chromatin adopts an intricate three-dimensional (3D) organization in the
nucleus that is critical for many genome processes, from gene regulation to genome …

On the existence and functionality of topologically associating domains

JA Beagan, JE Phillips-Cremins - Nature genetics, 2020 - nature.com
Genomes across a wide range of eukaryotic organisms fold into higher-order chromatin
domains. Topologically associating domains (TADs) were originally discovered empirically …

Regulation of single-cell genome organization into TADs and chromatin nanodomains

Q Szabo, A Donjon, I Jerković, GL Papadopoulos… - Nature …, 2020 - nature.com
The genome folds into a hierarchy of three-dimensional structures within the nucleus. At the
sub-megabase scale, chromosomes form topologically associating domains (TADs) …

[HTML][HTML] Advances in chromatin imaging at kilobase-scale resolution

A Boettiger, S Murphy - Trends in Genetics, 2020 - cell.com
It is now widely appreciated that the spatial organization of the genome is nonrandom, and
its complex 3D folding has important consequences for many genome processes. Recent …

Cell-cycle dynamics of chromosomal organization at single-cell resolution

T Nagano, Y Lubling, C Várnai, C Dudley, W Leung… - Nature, 2017 - nature.com
Chromosomes in proliferating metazoan cells undergo marked structural metamorphoses
every cell cycle, alternating between highly condensed mitotic structures that facilitate …

Topological domains in mammalian genomes identified by analysis of chromatin interactions

JR Dixon, S Selvaraj, F Yue, A Kim, Y Li, Y Shen, M Hu… - Nature, 2012 - nature.com
The spatial organization of the genome is intimately linked to its biological function, yet our
understanding of higher order genomic structure is coarse, fragmented and incomplete. In …

HiTAD: detecting the structural and functional hierarchies of topologically associating domains from chromatin interactions

XT Wang, W Cui, C Peng - Nucleic acids research, 2017 - academic.oup.com
A current question in the high-order organization of chromatin is whether topologically
associating domains (TADs) are distinct from other hierarchical chromatin domains …

In situ genome sequencing resolves DNA sequence and structure in intact biological samples

AC Payne, ZD Chiang, PL Reginato, SM Mangiameli… - Science, 2021 - science.org
INTRODUCTION Genomes are spatially organized across length scales from single base
pairs to whole chromosomes. This organization is thought to regulate gene expression and …

Prominent topologically associated domains differentiate global chromatin packing in rice from Arabidopsis

C Liu, YJ Cheng, JW Wang, D Weigel - Nature plants, 2017 - nature.com
The non-random three-dimensional organization of genomes is critical for many cellular
processes. Recently, analyses of genome-wide chromatin packing in the model dicot plant …

Condensed but liquid-like domain organization of active chromatin regions in living human cells

T Nozaki, S Shinkai, S Ide, K Higashi, S Tamura… - Science …, 2023 - science.org
In eukaryotes, higher-order chromatin organization is spatiotemporally regulated as
domains, for various cellular functions. However, their physical nature in living cells remains …