Results 21 to 30 of about 39,377 (243)

R-loop landscape in mature human sperm: Regulatory and evolutionary implications

Frontiers in Genetics, 2023
R-loops are three-stranded nucleic acid structures consisting of an RNA:DNA hybrid and a displaced DNA strand. While R-loops pose a potential threat to genome integrity, they constitute 5% of the human genome.
Maurice Scheuren, Jonas Möhner, Hans Zischler   +2 more
doaj   +1 more source

Characterizing chromatin interactions of regulatory elements and nucleosome positions, using Hi-C, Micro-C, and promoter capture Micro-C

Epigenetics & Chromatin, 2022
Background Regulatory elements such as promoters, enhancers, and insulators interact each other to mediate molecular processes. To capture chromatin interactions of regulatory elements, 3C-derived methods such as Hi-C and Micro-C are developed.
Beoung Hun Lee, Zexun Wu, Suhn K. Rhie
doaj   +1 more source

Spatial Organization of Chromatin: Transcriptional Control of Adaptive Immune Cell Development

Frontiers in Immunology, 2021
Higher-order spatial organization of the genome into chromatin compartments (permissive and repressive), self-associating domains (TADs), and regulatory loops provides structural integrity and offers diverse gene regulatory controls.
Jagan M. R. Pongubala, Cornelis Murre
doaj   +1 more source

Anchoring Chromatin Loops to Cancer. [PDF]

Dev Cell, 2017
Although some genomic rearrangements are caused by replication or transcription, the etiology of others is unclear. Reporting in Cell, Canela et al. (2017) reveal that type II topoisomerase-mediated release of torsional strain at chromosomal loop anchors generates DNA double-strand breaks that drive multiple oncogenic translocations in a transcription ...
Fowler F, Tyler JK.
europepmc   +4 more sources

ZNF143 in Chromatin Looping and Gene Regulation [PDF]

Frontiers in Genetics, 2020
ZNF143, a human homolog of the transcriptional activator Staf, is a C2H2-type protein consisting of seven zinc finger domains. As a transcription factor (TF), ZNF143 is sequence specifically binding to chromatin and activates the expression of protein-coding and non-coding genes on a genome scale.
Bingyu Ye, Bingyu Ye, Bingyu Ye, Bingyu Ye, Bingyu Ye, Bingyu Ye, Ganggang Yang, Ganggang Yang, Ganggang Yang, Ganggang Yang, Ganggang Yang, Ganggang Yang, Yuanmeng Li, Chunyan Zhang, Chunyan Zhang, Chunyan Zhang, Chunyan Zhang, Chunyan Zhang, Chunyan Zhang, Qiwen Wang, Qiwen Wang, Qiwen Wang, Qiwen Wang, Qiwen Wang, Qiwen Wang, Guoying Yu, Guoying Yu, Guoying Yu, Guoying Yu, Guoying Yu, Guoying Yu   +30 more
openaire   +3 more sources

Short‐range regulatory chromatin loops in plants [PDF]

New Phytologist, 2020
SummaryIn all eukaryotic organisms, gene expression correlates with the condensation state of the chromatin. Highly packed genome regions, known as heterochromatins, are associated with repressed loci, whereas euchromatic regions represent a relaxed state of the chromatin actively transcribed. However, even in these active regions, associations between
Delfina Gagliardi, Pablo A. Manavella
openaire   +3 more sources

Closed chromatin loops at the ends of chromosomes [PDF]

The Journal of Cell Biology, 2004
The termini of eukaryotic chromosomes contain specialized protective structures, the telomeres, composed of TTAGGG repeats and associated proteins which, together with telomerase, control telomere length. Telomere shortening is associated with senescence and inappropriate telomerase activity may lead to cancer.
Nikitina, Tatiana, Woodcock, Christopher L.   +1 more
openaire   +2 more sources

A supervised learning framework for chromatin loop detection in genome-wide contact maps

Nature Communications, 2020
Predicting chromatin loops from genome-wide interaction matrices such as Hi-C data provides insight into gene regulation events. Here, the authors present Peakachu, a Random Forest classification framework that predicts chromatin loops from genome-wide ...
Tarik J. Salameh, Xiaotao Wang, Fan Song, Bo Zhang, Sage M. Wright, Chachrit Khunsriraksakul, Yijun Ruan, Feng Yue   +7 more
doaj   +1 more source

Loops and the activity of loop extrusion factors constrain chromatin dynamics [PDF]

Molecular Biology of the Cell, 2020
The relationship between chromatin structure and dynamics is incompletely understood. Here experimental and computational approaches are combined to reveal that looping interactions impose constraints on chromatin mobility while the ATP-dependent INO80 chromatin remodeler plays an important role in energy-dependent chromatin dynamics.
Mary Lou P. Bailey, Ivan Surovtsev, Jessica F. Williams, Hao Yan, Tianyu Yuan, Kevin Li, Katherine Duseau, Simon G. J. Mochrie, Megan C. King   +8 more
openaire   +2 more sources

Open chromatin interaction maps reveal functional regulatory elements and chromatin architecture variations during wheat evolution

Genome Biology, 2022
Background Bread wheat (Triticum aestivum) is an allohexaploid that is generated by two subsequent allopolyploidization events. The large genome size (16 Gb) and polyploid complexity impede our understanding of how regulatory elements and their ...
Jingya Yuan, Haojie Sun, Yijin Wang, Lulu Li, Shiting Chen, Wu Jiao, Guanghong Jia, Longfei Wang, Junrong Mao, Zhongfu Ni, Xiue Wang, Qingxin Song   +11 more
doaj   +1 more source