Results 101 to 110 of about 303,776 (147)

Promoter capture Hi-C identifies promoter-related loops and fountain structures in Arabidopsis

Genome Biology
Background Promoters serve as key elements in the regulation of gene transcription. In mammals, loop interactions between promoters and enhancers increase the complexity of the promoter-based regulatory networks.
Dingyue Wang, Suxin Xiao, Jiayue Shu, Lingxiao Luo, Minqi Yang, Myriam Calonje, Hang He, Baoxing Song, Yue Zhou   +8 more
doaj   +1 more source

R Loops Are Linked to Histone H3 S10 Phosphorylation and Chromatin Condensation

, 2013
R loops are transcription byproducts that constitute a threat to genome integrity. Here we show that R loops are tightly linked to histone H3 S10 phosphorylation (H3S10P), a mark of chromatin condensation. Chromatin immunoprecipitation (ChIP)-on-chip
Santos-Pereira, José M., Rondón, Ana G., Andújar, Eloísa, Pérez-Alegre, Mónica, Aguilera, Andrés, Castellano-Pozo, Maikel, García-Muse, Tatiana, Barroso, Sonia   +7 more
core   +1 more source

CREPT is required for the metastasis of triple-negative breast cancer through a co-operational-chromatin loop-based gene regulation

Molecular Cancer
Triple-negative breast cancer (TNBC) is recognized for its aggressiveness, yet the mechanism underlying metastasis remains unclear. Here, we report that CREPT/RPRD1B, which exhibits somatic gene copy-number amplifications and elevated expression ...
Jianghua Li, Lu Xu, Jiayu Wang, Xuning Wang, Yuting Lin, Alex Yutian Zou, Fangli Ren, Yinyin Wang, Jun Li, Zhijie Chang   +9 more
doaj   +1 more source

INO80 regulates promoter-associated R-loops to coordinate transcription and maintain genome stability in embryonic stem cells

Biological Research
Background Embryonic stem cells (ESCs) possess a distinctive cell cycle structure and chromatin landscape that necessitate precise coordination between transcription and DNA replication.
Hoseong Lim, Ohbeom Kwon, Hyeonwoo La, Hyeonji Lee, Heeji Lee, Jeong-Tae Do, Hyuk Song, Youngsok Choi, Kwonho Hong   +8 more
doaj   +1 more source

Combinatorics and topological weights of chromatin loop networks

Physical Review E
Polymer physics models suggest that chromatin spontaneously folds into loop networks with transcription units (TUs), such as enhancers and promoters, as anchors. Here we use combinatoric arguments to enumerate the emergent chromatin loop networks, both in the case where TUs are labeled and where they are unlabeled.
Andrea Bonato, Michael Chiang, Dom Corbett, Sergey Kitaev, Davide Marenduzzo, Alexander Morozov, Enzo Orlandini   +6 more
openaire   +5 more sources

Mapping nucleosome-resolution chromatin organization and enhancer-promoter loops in plants using Micro-C-XL

Nature Communications
Although chromatin organizations in plants have been dissected at the scales of compartments and topologically associating domain (TAD)-like domains, there remains a gap in resolving fine-scale structures.
Linhua Sun, Jingru Zhou, Xiao Xu, Yi Liu, Ni Ma, Yutong Liu, Wenchao Nie, Ling Zou, Xing Wang Deng, Hang He   +9 more
doaj   +1 more source

PRC1‐Mediated H2Aub Loop Formation and Function in Arabidopsis

Advanced Science
Polycomb group (PcG) complexes play a crucial role in the regulation of gene repression and in organizing the 3D conformation of chromatin. However, while Polycomb Repressive Complex (PRC) 2 mediated H3K27me3 clearly contributes to the formation of ...
Lingxiao Luo, Minqi Yang, Zhihan Song, Yali Liu, Suxin Xiao, Dingyue Wang, Myriam Calonje, Hang He, Yue Zhou   +8 more
doaj   +1 more source

Comprehensive Predictions of Mef2-Mediated Chromatin Loops, Which May Inhibit Ubx Binding by Blocking Low-Affinity Binding Sites

Journal of Developmental Biology
Gene regulation depends on the interaction between chromatin-associated factors, such as transcription factors (TFs), which promote chromatin loops to ensure tight contact between enhancer and promoter regions.
Katrin Domsch
doaj   +1 more source

Integrative Analysis Reveals Conserved R-Loop Features in Mouse Embryonic Stem Cells

Epigenomes
R-loops, three-stranded nucleic acid structures formed by an RNA-DNA hybrid, have emerged as important regulators of transcription and genome stability. Although advances in high-throughput sequencing have revealed widespread R-loop landscapes, platform ...
Ohbeom Kwon, Hyeonwoo La, Seonho Yoo, Hyeonji Lee, Heeji Lee, Hoseong Lim, Chanhyeok Park, Dong Wook Han, Jeong-Tae Do, Hyuk Song, Youngsok Choi, Kwonho Hong   +11 more
doaj   +1 more source

R-loop homeostasis at transposable elements safeguards transcriptional silencing in replication-quiescent oocytes

Nature Communications
R-loops, though implicated in genome stability, have poorly defined transcriptional roles due to confounding replication processes in proliferating cells.
Shao-Yuan Liu, Xin-Yi Tian, Hong-Fen Fu, Yong Zhou, Yi-Sha Cai, Jun Wen, Ze-Lin Wang, Yun-Wen Wu, Qiong-Wen Lu, Xiu-Quan Liao, Qian-Qian Sha   +10 more
doaj   +1 more source