Understanding 3D genome organization by multidisciplinary methods

I Jerkovic, G Cavalli - Nature Reviews Molecular Cell Biology, 2021 - nature.com
Understanding how chromatin is folded in the nucleus is fundamental to understanding its
function. Although 3D genome organization has been historically difficult to study owing to a …

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

H Zheng, W Xie - 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 …

New insights into genome folding by loop extrusion from inducible degron technologies

E de Wit, EP Nora - Nature Reviews Genetics, 2023 - nature.com
Chromatin folds into dynamic loops that often span hundreds of kilobases and physically
wire distant loci together for gene regulation. These loops are continuously created …

Hi-C 2.0: An optimized Hi-C procedure for high-resolution genome-wide mapping of chromosome conformation

H Belaghzal, J Dekker, JH Gibcus - Methods, 2017 - Elsevier
Chromosome conformation capture-based methods such as Hi-C have become mainstream
techniques for the study of the 3D organization of genomes. These methods convert …

Epigenome in early mammalian development: inheritance, reprogramming and establishment

Q Xu, W Xie - Trends in cell biology, 2018 - cell.com
Drastic epigenetic reprogramming takes place during preimplantation development, leading
to the conversion of terminally differentiated gametes to a totipotent embryo. Deficiencies in …

Epigenetic reprogramming at estrogen-receptor binding sites alters 3D chromatin landscape in endocrine-resistant breast cancer

J Achinger-Kawecka, F Valdes-Mora, PL Luu… - Nature …, 2020 - nature.com
Endocrine therapy resistance frequently develops in estrogen receptor positive (ER+) breast
cancer, but the underlying molecular mechanisms are largely unknown. Here, we show that …

Modeling epigenetic lesions that cause gliomas

GJ Rahme, NM Javed, KL Puorro, S Xin, V Hovestadt… - Cell, 2023 - cell.com
Epigenetic lesions that disrupt regulatory elements represent potential cancer drivers.
However, we lack experimental models for validating their tumorigenic impact. Here, we …

Polycomb group proteins regulate chromatin architecture in mouse oocytes and early embryos

Z Du, H Zheng, YK Kawamura, K Zhang, J Gassler… - Molecular cell, 2020 - cell.com
In mammals, chromatin organization undergoes drastic reorganization during oocyte
development. However, the dynamics of three-dimensional chromatin structure in this …

HOTTIP lncRNA promotes hematopoietic stem cell self-renewal leading to AML-like disease in mice

H Luo, G Zhu, J Xu, Q Lai, B Yan, Y Guo, TK Fung… - Cancer cell, 2019 - cell.com
Long non-coding RNAs (lncRNAs) are critical for regulating HOX genes, aberration of which
is a dominant mechanism for leukemic transformation. How HOX gene-associated lncRNAs …

Reprogramming of meiotic chromatin architecture during spermatogenesis

Y Wang, H Wang, Y Zhang, Z Du, W Si, S Fan, D Qin… - Molecular cell, 2019 - cell.com
Chromatin organization undergoes drastic reconfiguration during gametogenesis. However,
the molecular reprogramming of three-dimensional chromatin structure in this process …