Methods for map** 3D chromosome architecture

R Kempfer, A Pombo - Nature Reviews Genetics, 2020 - nature.com
Determining how chromosomes are positioned and folded within the nucleus is critical to
understanding the role of chromatin topology in gene regulation. Several methods are …

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

H Zheng, W **e - 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 …

Integrated spatial genomics reveals global architecture of single nuclei

Y Takei, J Yun, S Zheng, N Ollikainen, N Pierson… - Nature, 2021 - nature.com
Identifying the relationships between chromosome structures, nuclear bodies, chromatin
states and gene expression is an overarching goal of nuclear-organization studies …

[HTML][HTML] Organization of chromatin by intrinsic and regulated phase separation

BA Gibson, LK Doolittle, MWG Schneider, LE Jensen… - Cell, 2019 - cell.com
Eukaryotic chromatin is highly condensed but dynamically accessible to regulation and
organized into subdomains. We demonstrate that reconstituted chromatin undergoes …

Biophysical forces mediated by respiration maintain lung alveolar epithelial cell fate

K Shiraishi, PP Shah, MP Morley, C Loebel, GT Santini… - Cell, 2023 - cell.com
Lungs undergo mechanical strain during breathing, but how these biophysical forces affect
cell fate and tissue homeostasis are unclear. We show that biophysical forces through …

[HTML][HTML] Multiscale 3D genome rewiring during mouse neural development

B Bonev, NM Cohen, Q Szabo, L Fritsch… - Cell, 2017 - cell.com
Chromosome conformation capture technologies have revealed important insights into
genome folding. Yet, how spatial genome architecture is related to gene expression and cell …

Transcription factors and 3D genome conformation in cell-fate decisions

R Stadhouders, GJ Filion, T Graf - Nature, 2019 - nature.com
How cells adopt different identities has long fascinated biologists. Signal transduction in
response to environmental cues results in the activation of transcription factors that …

Higher-order inter-chromosomal hubs shape 3D genome organization in the nucleus

SA Quinodoz, N Ollikainen, B Tabak, A Palla… - Cell, 2018 - cell.com
Eukaryotic genomes are packaged into a 3-dimensional structure in the nucleus. Current
methods for studying genome-wide structure are based on proximity ligation. However, this …

Targeted degradation of CTCF decouples local insulation of chromosome domains from genomic compartmentalization

EP Nora, A Goloborodko, AL Valton, JH Gibcus… - Cell, 2017 - cell.com
The molecular mechanisms underlying folding of mammalian chromosomes remain poorly
understood. The transcription factor CTCF is a candidate regulator of chromosomal …

Lamina-associated domains: links with chromosome architecture, heterochromatin, and gene repression

B Van Steensel, AS Belmont - Cell, 2017 - cell.com
In metazoan cell nuclei, hundreds of large chromatin domains are in close contact with the
nuclear lamina. Such lamina-associated domains (LADs) are thought to help organize …