DNA loops after cell lysis resemble chromatin loops in an intact nucleus
The Ukrainian Biochemical Journal, 2018 The comet assay has proved itself to be not only a method of detection of DNA damages at the level of individual cells but also an approach for investigation of spatial organization of DNA loop domains in nucleoids.
K. S. Afanasieva +2 more
doaj +2 more sources
BIOLOGICAL CONSEQUENCES OF CHROMATIN LOOPING IN PERICENTRIC CHROMATIN [PDF]
, 2018 During mitosis, replicated sister chromatids are attached to opposite sides of a microtubule spindle at their centromeres in a process called biorientation. The proteinaceous structure that links centromeres, a region of the chromosome, to the spindle is called the kinetochore.
Lawrimore, Joshua
openaire +2 more sources
Closing the loops: chromatin loop dynamics after DNA damage
NucleusChromatin is a dynamic polymer in constant motion. These motions are heterogeneous between cells and within individual cell nuclei and are profoundly altered in response to DNA damage. The shifts in chromatin motions following genomic insults depend on the temporal and physical scales considered. They are also distinct in damaged and undamaged regions.
Vidi, Pierre-Alexandre +3 more
openaire +5 more sources
cPRC1.2 and CTCF-mediated transition from poised to active chromatin loops at bivalent genes
EMBO ReportsPolycomb Repressive Complex 1 (PRC1) and CCCTC-binding factor (CTCF) are critical regulators of 3D chromatin architecture that influence cellular transcriptional programs. Although the role of CTCF in chromatin organization is well-known, the involvement
Aflah Hanafiah +9 more
doaj +2 more sources
Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation [PDF]
Genome Biology, 2020 We present Mustache, a new method for multi-scale detection of chromatin loops from Hi-C and Micro-C contact maps. Mustache employs scale-space theory, a technical advance in computer vision, to detect blob-shaped objects in contact maps.
Abbas Roayaei Ardakany +3 more
doaj +2 more sources
High-resolution chromatin mapping reveals that CTCF anchors meiotic loops to the chromosome axis
Nature CommunicationsWhen precursor germ cells enter meiosis, chromosomes condense into an array of chromatin loops. Using Hi-C and Micro-C, we explored the trajectory of chromatin reorganization from mouse spermatogonia to spermatocytes at the highest temporal and spatial ...
Gang Cheng +7 more
doaj +2 more sources
CD-Loop: a chromatin loop detection method based on the diffusion model
Frontiers in GeneticsMotivationIn recent years, there have been significant advances in various chromatin conformation capture techniques, and annotating the topological structure from Hi-C contact maps has become crucial for studying the three-dimensional structure of ...
Jiquan Shen, Yang Wang, Junwei Luo
doaj +3 more sources
The anatomy of transcriptionally active chromatin loops in Drosophila primary spermatocytes using super-resolution microscopy. [PDF]
PLoS Genetics, 2023 While the biochemistry of gene transcription has been well studied, our understanding of how this process is organised in 3D within the intact nucleus is less well understood.
Madeleine L Ball +5 more
doaj +11 more sources
Extrusion of chromatin loops by a composite loop extrusion factor [PDF]
Physical Review E, 2021 12 pages, 7 ...
Hao Yan +5 more
openaire +3 more sources
Chromatin Loop Extrusion and Chromatin Unknotting [PDF]
Polymers, 2018 It has been a puzzle how decondensed interphase chromosomes remain essentially unknotted. The natural expectation is that in the presence of type II DNA topoisomerases that permit passages of double-stranded DNA regions through each other, all chromosomes should reach the state of topological equilibrium.
Racko, Dusan +3 more
openaire +5 more sources