Results 31 to 40 of about 5,441 (220)
Frontiers in Immunology, 2021 Though viruses have their own genomes, many depend on the nuclear environment of their hosts for replication and survival. A substantial body of work has therefore been devoted to understanding how viral and eukaryotic genomes interact.
Kinjal Majumder, Abigail J. Morales
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The CTCF Anatomy of Topologically Associating Domains [PDF]
, 2019 Abstract Topologically associated domains (TADs) are defined as regions of self-interaction. To date, it is unclear how to reconcile TAD structure with CTCF site orientation, which is known to coordinate chromatin loops anchored by Cohesin rings at convergent CTCF site pairs.
Nanni, Luca +7 more
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Stem Cell Reports, 2019 Summary: During mammalian embryogenesis, changes in morphology and gene expression are concurrent with epigenomic reprogramming. Using human embryonic stem cells representing the preimplantation blastocyst (naive) and postimplantation epiblast (primed ...
Stephanie L. Battle +10 more
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HiTAD: detecting the structural and functional hierarchies of topologically associating domains from chromatin interactions [PDF]
Nucleic Acids Research, 2017 Cheng Peng, Xiaotao Wang
exaly +2 more sources
Disruption of topologically associating domains by structural variations in tetraploid cottons
Genomics, 2021 Structural variations (SVs) are recognized to have an important role in transcriptional regulation, especially in the light of resolved 3D genome structure using high-throughput chromosome conformation capture (Hi-C) technology in mammals. However, the effect of SVs on 3D genome organization in plants remains rarely understood.
Yuexuan, Long +7 more
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Mapping chromosome neighborhoods
BioTechniques, 2015 The discovery of topologically associating domains (TADs) changed the way researchers think about gene expression and chromosome structure. Jeffrey Perkel takes a closer look into these “chromosome neighborhoods.”
Jeffrey Perkel
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HiCmapTools: a tool to access HiC contact maps
BMC Bioinformatics, 2022 Background With the development of HiC technology, more and more HiC sequencing data have been produced. Although there are dozens of packages that can turn sequencing data into contact maps, there is no appropriate tool to query contact maps in order to
Jia-Ming Chang +4 more
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Structural Fluctuations of the Chromatin Fiber within Topologically Associating Domains [PDF]
Biophysical Journal, 2016 Experiments based on chromosome conformation capture have shown that mammalian genomes are partitioned into topologically associating domains (TADs), within which the chromatin fiber preferentially interacts. TADs may provide three-dimensional scaffolds allowing genes to contact their appropriate distal regulatory DNA sequences (e.g., enhancers) and ...
G. Tiana +6 more
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Nature Communications, 2022 Identifying structural variants (SVs) under positive selection in cancer is challenging. Here, the authors develop CSVDriver, a method that computes SV breakpoint proximity and the contribution of elements such as topologically associating domains, and ...
Alexander Martinez-Fundichely +2 more
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Topologically Associated Domains Delineate Susceptibility to Somatic Hypermutation
Cell Reports, 2019 Somatic hypermutation (SHM) introduces point mutations into immunoglobulin (Ig) genes but also causes mutations in other parts of the genome. We have used lentiviral SHM reporter vectors to identify regions of the genome that are susceptible ("hot") and resistant ("cold") to SHM, revealing that SHM susceptibility and resistance are often properties of ...
Senigl, Filip +13 more
openaire +5 more sources