Results 61 to 70 of about 329,145 (275)

SATB1-mediated functional packaging of chromatin into loops [PDF]

Methods, 2012
Mammalian genomes are organized into multiple layers of higher-order chromatin structure, and in this organization chromatin looping is a striking and crucial feature that brings together distal genomic loci into close spatial proximity. Such three-dimensional organization of chromatin has been suggested to be functionally important in gene regulation.
Kohwi-Shigematsu, Terumi, Kohwi, Yoshinori, Takahashi, Keiko, Richards, Hunter W, Ayers, Stephen D, Han, Hye-Jung, Cai, Shutao   +6 more
openaire   +4 more sources

Chromatin loops.

, 2016
Many loops in chromatin demarcate contact domains. Usually the loops are anchored at a pair of convergent CTCF binding sites. It is hypothised that radiation is most effective by producing DSBs at the anchor locations by producing rings.
Jürgen Besserer (3228837), Uwe Schneider (15482), Fabiano Vasi (3228834)   +2 more
core   +1 more source

CGLoop: a neural network framework for chromatin loop prediction

BMC Genomics
Background Chromosomes of species exhibit a variety of high-dimensional organizational features, and chromatin loops, which are fundamental structures in the three-dimensional (3D) structure of the genome. Chromatin loops are visible speckled patterns on
Junfeng Wang, Lili Wu, Jingjing Wei, Chaokun Yan, Huimin Luo, Junwei Luo, Fei Guo   +6 more
doaj   +1 more source

Modelling stem cell differentiation related processes—A practical overview for biologists

FEBS Letters, EarlyView.
Stem cell differentiation is complex and difficult to control experimentally. This review introduces suitable computational modelling approaches that can support stem cell research, from mechanistic ODE and abstract models to multiscale and deep learning methods.
Ricco Zeegelaar, Xinqi Yan, Lucas F. Jansen Klomp, Stefano Schivo, Janine N. Post   +4 more
wiley   +1 more source

Kinetic control of eukaryotic chromatin structure by recursive topological restraints [PDF]

, 2008
Chromatin structure undergoes many changes during the cell cycle and in response to regulatory events. A basic unit of chromatin organization is the nucleosome core particle.
Dominika Borek, Zbyszek Otwinowski
core  

Epigenetic reprogramming of lineage switching in cancer

FEBS Letters, EarlyView.
Cancer cells rarely commit to a single identity. Epigenetic mechanisms and tumor microenvironment cues push epithelial cells toward flexible, hybrid states that can shift into mesenchymal, neuroendocrine, or stem‐like fates, driving metastasis, drug resistance, and tumor heterogeneity. Targeting the epigenetic regulators behind these transitions, using
Ezgi Boyvatlı, Burcu Akman, Ezgi Bağırsakçı, Nese Atabey, Serap Erkek‐Ozhan   +4 more
wiley   +1 more source

Chromatin loop anchors contain core structural components of the gene expression machinery in maize

BMC Genomics, 2021
Background Three-dimensional chromatin loop structures connect regulatory elements to their target genes in regions known as anchors. In complex plant genomes, such as maize, it has been proposed that loops span heterochromatic regions marked by higher ...
Stéphane Deschamps, John A. Crow, Nadia Chaidir, Brooke Peterson-Burch, Sunil Kumar, Haining Lin, Gina Zastrow-Hayes, Gregory D. May   +7 more
doaj   +1 more source

Synergistic perspectives—How single‐molecule biophysics complement biochemical understanding

FEBS Letters, EarlyView.
In this review, we discuss how ensemble biochemistry and single‐molecule approaches are complementary, outline commonly used single‐molecule techniques, and illustrate their relevance through two representative case studies: chromatin organization by SMC complexes and pathway choice during DNA double‐strand break repair.
Sara De Bragança, Eline L. Jansen, Jorine M. Eeftens   +2 more
wiley   +1 more source

CRISPR-Mediated Reorganization of Chromatin Loop Structure [PDF]

Journal of Visualized Experiments, 2018
Recent studies have clearly shown that long-range, three-dimensional chromatin looping interactions play a significant role in the regulation of gene expression, but whether looping is responsible for or a result of alterations in gene expression is still unknown.
Morgan, Stefanie L., Chang, Erin Y., Mariano, Natasha C., Bermudez, Abel, Arruda, Nicole L., Wu, Fanting, Luo, Yunhai, Shankar, Gautam, Huynh, Star K., Huang, Chiao-Chain, Pitteri, Sharon J., Wang, Kevin C.   +11 more
openaire   +2 more sources

From junk to function — How weak selection in eukaryotes builds new parts and drives genomic complexity

FEBS Letters, EarlyView.
How do genomes gain new functional parts? In eukaryotes, which tend to evolve under weak selection, much of the genome is junk. Palazzo and Qiu borrow the logic of Markov chains to show how non‐functional DNA becomes functional through the appearance of intermediate states, which arise due to epistasis, buffering, and biochemical messiness, allowing ...
Alexander F. Palazzo, Yi Qiu
wiley   +1 more source