Results 41 to 50 of about 6,238 (235)

Three‐dimensional genome structure shapes the recombination landscape of chromatin features during female germline stem cell development

Clinical and Translational Medicine, 2022
Background During meiosis of mammalian cells, chromatin undergoes drastic reorganization. However, the dynamics of the three‐dimensional (3D) chromatin structure during the development of female germline stem cells (FGSCs) are poorly understood.
Geng G. Tian, Changliang Hou, Jing Li, Ji Wu   +3 more
doaj   +1 more source

Topologically associating domains define the impact of de novo promoter variants on autism spectrum disorder risk

, 2023
<p>Codes for reproducing results in the manuscript "Topologically associating domains define the impact of de novo promoter variants on autism spectrum disorder risk".</p ...
Honda, Kurara, Takata, Atsushi, Kazuno, An-a, Nakamura, Takumi, Mizuno, Shota, Ueda, Junko, Hara, Tomonori, Yamamoto, Hirona   +7 more
core   +1 more source

Utilization of Host Cell Chromosome Conformation by Viral Pathogens: Knowing When to Hold and When to Fold

Frontiers in Immunology, 2021
Though viruses have their own genomes, many depend on the nuclear environment of their hosts for replication and survival. A substantial body of work has therefore been devoted to understanding how viral and eukaryotic genomes interact.
Kinjal Majumder, Abigail J. Morales
doaj   +1 more source

Exploring mammalian chromatin architecture and its impact on gene regulation

, 2023
Mammalian chromatin architecture appears hierarchically organised and is composed of chromosome territories, compartments, topologically associating domains (TADs), loops and nucleosomes.
Long, Helen
core   +1 more source

The CTCF Anatomy of Topologically Associating Domains [PDF]

, 2019
Abstract Topologically associated domains (TADs) are defined as regions of self-interaction. To date, it is unclear how to reconcile TAD structure with CTCF site orientation, which is known to coordinate chromatin loops anchored by Cohesin rings at convergent CTCF site pairs.
Nanni, Luca, Wang, Cheng, Manders, Freek, Groh, Laszlo, Haro, Paula, Oldenkamp, Roel, Ceri, Stefano, Logie, Colin   +7 more
openaire   +1 more source

Enhancer Chromatin and 3D Genome Architecture Changes from Naive to Primed Human Embryonic Stem Cell States

Stem Cell Reports, 2019
Summary: During mammalian embryogenesis, changes in morphology and gene expression are concurrent with epigenomic reprogramming. Using human embryonic stem cells representing the preimplantation blastocyst (naive) and postimplantation epiblast (primed ...
Stephanie L. Battle, Naresh Doni Jayavelu, Robert N. Azad, Jennifer Hesson, Faria N. Ahmed, Eliah G. Overbey, Joseph A. Zoller, Julie Mathieu, Hannele Ruohola-Baker, Carol B. Ware, R. David Hawkins   +10 more
doaj   +1 more source

Disruption of topologically associating domains by structural variations in tetraploid cottons

Genomics, 2021
Structural variations (SVs) are recognized to have an important role in transcriptional regulation, especially in the light of resolved 3D genome structure using high-throughput chromosome conformation capture (Hi-C) technology in mammals. However, the effect of SVs on 3D genome organization in plants remains rarely understood.
Yuexuan, Long, Zhenping, Liu, Pengcheng, Wang, Hang, Yang, Yuejin, Wang, Sainan, Zhang, Xianlong, Zhang, Maojun, Wang   +7 more
openaire   +2 more sources

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

Nucleic Acids Research, 2017
Xiaotao Wang, Cheng Peng
exaly   +2 more sources

Mapping chromosome neighborhoods

BioTechniques, 2015
The discovery of topologically associating domains (TADs) changed the way researchers think about gene expression and chromosome structure. Jeffrey Perkel takes a closer look into these “chromosome neighborhoods.”
Jeffrey Perkel
doaj   +1 more source

HiCmapTools: a tool to access HiC contact maps

BMC Bioinformatics, 2022
Background With the development of HiC technology, more and more HiC sequencing data have been produced. Although there are dozens of packages that can turn sequencing data into contact maps, there is no appropriate tool to query contact maps in order to
Jia-Ming Chang, Yi-Fu Weng, Wei-Ting Chang, Fu-An Lin, Giacomo Cavalli   +4 more
doaj   +1 more source