[HTML][HTML] Dynamics of the 4D genome during in vivo lineage specification and differentiation

AM Oudelaar, RA Beagrie, M Gosden… - Nature …, 2020 - nature.com
Mammalian gene expression patterns are controlled by regulatory elements, which interact
within topologically associating domains (TADs). The relationship between activation of …

Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation

J Paulsen, TM Liyakat Ali, M Nekrasov, E Delbarre… - Nature …, 2019 - nature.com
Genomic information is selectively used to direct spatial and temporal gene expression
during differentiation. Interactions between topologically associating domains (TADs) and …

[HTML][HTML] Three-dimensional folding dynamics of the Xenopus tropicalis genome

L Niu, W Shen, Z Shi, Y Tan, N He, J Wan, J Sun… - Nature Genetics, 2021 - nature.com
Animal interphase chromosomes are organized into topologically associating domains
(TADs). How TADs are formed is not fully understood. Here, we combined high-throughput …

[HTML][HTML] Resolving the 3D landscape of transcription-linked mammalian chromatin folding

THS Hsieh, C Cattoglio, E Slobodyanyuk, AS Hansen… - Molecular cell, 2020 - cell.com
Whereas folding of genomes at the large scale of epigenomic compartments and
topologically associating domains (TADs) is now relatively well understood, how chromatin …

Evolution of 3D chromatin organization at different scales

RD Acemel, DG Lupiáñez - Current opinion in genetics & development, 2023 - Elsevier
Highlights•Chromatin folding into topologically associated domains (TADs) is pervasive
across animal groups.•TADs are plastic entities composed of genomic strata from different …

[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 …

[HTML][HTML] Predictive polymer modeling reveals coupled fluctuations in chromosome conformation and transcription

L Giorgetti, R Galupa, EP Nora, T Piolot, F Lam… - Cell, 2014 - cell.com
A new level of chromosome organization, topologically associating domains (TADs), was
recently uncovered by chromosome conformation capture (3C) techniques. To explore TAD …

[HTML][HTML] Structural fluctuations of the chromatin fiber within topologically associating domains

G Tiana, A Amitai, T Pollex, T Piolot, D Holcman… - Biophysical journal, 2016 - cell.com
Experiments based on chromosome conformation capture have shown that mammalian
genomes are partitioned into topologically associating domains (TADs), within which the …

[HTML][HTML] Chromatin architecture emerges during zygotic genome activation independent of transcription

CB Hug, AG Grimaldi, K Kruse, JM Vaquerizas - Cell, 2017 - cell.com
Chromatin architecture is fundamental in regulating gene expression. To investigate when
spatial genome organization is first established during development, we examined …

[HTML][HTML] Defining functionally relevant spatial chromatin domains: it is a TAD complicated

N Sikorska, T Sexton - Journal of molecular biology, 2020 - Elsevier
Chromosome conformation capture and orthologous methods uncovered the spatial
organization of metazoan chromosomes into autonomously folded substructures, often …