Results 31 to 40 of about 110,305 (278)

A GC-centered view of 3D genome organization

Current Opinion in Genetics & Development, 2023
In the past two decades, our understanding of how the genome of mammalian cells is spatially organized in the three-dimensional (3D) space of the nucleus and how key nuclear processes are orchestrated in this space has drastically expanded. While genome organization has been extensively studied at the nanoscale, the higher-order arrangement of ...
Bouwman, Britta AM, Crosetto, Nicola, Bienko, Magda   +2 more
openaire   +3 more sources

Plant 3D genomics: the exploration and application of chromatin organization [PDF]

New Phytologist, 2021
SummaryEukaryotic genomes are highly folded for packing into higher‐order chromatin structures in the nucleus. With the emergence of state‐of‐the‐art chromosome conformation capture methods and microscopic imaging techniques, the spatial organization of chromatin and its functional implications have been interrogated.
Liuling Pei, Guoliang Li, Keith Lindsey, Xianlong Zhang, Maojun Wang   +4 more
openaire   +3 more sources

3D disorganization and rearrangement of genome provide insights into pathogenesis of NAFLD by integrated Hi-C, Nanopore, and RNA sequencing

Acta Pharmaceutica Sinica B, 2021
The three-dimensional (3D) conformation of chromatin is integral to the precise regulation of gene expression. The 3D genome and genomic variations in non-alcoholic fatty liver disease (NAFLD) are largely unknown, despite their key roles in cellular ...
Lina Xu, Lianhong Yin, Yan Qi, Xuemei Tan, Meng Gao, Jinyong Peng   +5 more
doaj   +1 more source

Genetic-epigenetic interplay in the determination of plant 3D genome organization. [PDF]

Nucleic Acids Res
International audienceAbstract The 3D chromatin organization plays a major role in the control of gene expression. However, our comprehension of the governing principles behind nuclear organization remains incomplete.
He X, Dias Lopes C, Pereyra-Bistrain LI, Huang Y, An J, Chaouche RB, Zalzalé H, Wang Q, Ma X, Antunez-Sanchez J, Bergounioux C, Piquerez S, Fragkostefanakis S, Zhang Y, Zheng S, Crespi M, Mahfouz MM, Mathieu O, Ariel F, Gutierrez-Marcos J, Li X, Bouché N, Raynaud C, Latrasse D, Benhamed M, Benhamed M.   +25 more
europepmc   +2 more sources

Chromosome conformation capture approaches to investigate 3D genome architecture in Ankylosing Spondylitis

Frontiers in Genetics, 2023
Ankylosing Spondylitis (AS) is a chronic inflammatory arthritis of the spine exhibiting a strong genetic background. The mechanistic and functional understanding of the AS-associated genomic loci, identified with Genome Wide Association Studies (GWAS ...
Connor Davidson, Connor Davidson, B. Paul Wordsworth, Carla J. Cohen, Carla J. Cohen, Julian C. Knight, Matteo Vecellio, Matteo Vecellio   +7 more
doaj   +1 more source

Pluripotency in 3D: genome organization in pluripotent cells [PDF]

Current Opinion in Cell Biology, 2012
Cells face the challenge of storing two meters of DNA in the three-dimensional (3D) space of the nucleus that spans only a few microns. The nuclear organization that is required to overcome this challenge must allow for the accessibility of the gene regulatory machinery to the DNA and, in the case of embryonic stem cells (ESCs), for the transcriptional
Matthew, Denholtz, Kathrin, Plath
openaire   +2 more sources

Toward understanding the dynamic state of 3D genome

Computational and Structural Biotechnology Journal, 2020
The three-dimensional (3D) genome organization and its role in biological activities have been investigated for over a decade in the field of cell biology.
Soya Shinkai, Shuichi Onami, Ryuichiro Nakato   +2 more
doaj   +1 more source

Initial Genomics of the Human Nucleolus [PDF]

, 2010
We report for the first time the genomics of a nuclear compartment of the eukaryotic cell. 454 sequencing and microarray analysis revealed the pattern of nucleolus-associated chromatin domains (NADs) in the linear human genome and identified different ...
Laengst, Gernot, Santoyo-Lopez, Javier, Bálint Péterfia, Montaner David, Längst, Gernot, Conesa, Ana, Javier Santoyo-Lopez, Irina Solovei, Solovei, Irina, Dopazo, Joaquin, Cremer Thomas, Thomas Cremer, Joaquin Dopazo, Ignacio Medina, Nemeth, Attila, Medina, Ignacio, Längst Gernot, Akhtar, Asifa, Medina Ignacio, Németh Attila, Peterfia, Balint, Gernot Längst, Cremer, Thomas, Péterfia Bálint, Montaner, David, Solovei Irina, Attila Németh, Ana Conesa, Santoyo-Lopez Javier, Dopazo Joaquin, Conesa Ana, David Montaner   +31 more
core   +1 more source

Quantifying conformational heterogeneity of 3D genome organization in fruit fly. [PDF]

PLoS One
Abstract The three-dimensional (3D) organization of interphase chromatin in eukaryotes is complex; details of the corresponding genome structures vary stochastically from cell to cell. Here, we propose a metric to quantify the cell-to-cell heterogeneity of the 3D chromatin conformations in ensembles of single cells:
Mali S, Tolokh IS, Cross E, Onufriev AV.
europepmc   +6 more sources

Super-Enhancers, Phase-Separated Condensates, and 3D Genome Organization in Cancer. [PDF]

Cancers (Basel), 2022
SIMPLE SUMMARY: Gene expression is primarily controlled at the level of transcription, largely due to binding of transcription factors to specific sites on DNA, namely super-enhancers and promoters.
Tang SC, Vijayakumar U, Zhang Y, Fullwood MJ.   +3 more
europepmc   +2 more sources