Results 51 to 60 of about 6,238 (235)
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
doaj +1 more source
Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells. [PDF]
Nat Genet, 2019 Chromatin architecture has been implicated in cell type-specific gene regulatory programs, yet how chromatin remodels during development remains to be fully elucidated.
Zhang Y +21 more
europepmc +2 more sources
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
Topologically associating domain boundaries are required for normal genome function
Communications Biology, 2023 AbstractTopologically associating domain (TAD) boundaries partition the genome into distinct regulatory territories. Anecdotal evidence suggests that their disruption may interfere with normal gene expression and cause disease phenotypes1–3, but the overall extent to which this occurs remains unknown.
Sudha Rajderkar +28 more
openaire +6 more sources
Deciphering the species-level structure of topologically associating domains [PDF]
, 2021 Summary Chromosome conformation capture technologies such as Hi-C have revealed a rich hierarchical structure of chromatin, with topologically associating domains (TADs) as a key organizational unit, but experimentally reported TAD architectures, currently determined separately for each cell type, are lacking for many
Rohit Singh, Bonnie Berger
openaire +1 more source
Order and stochasticity in the folding of individual Drosophila genomes
Nature Communications, 2021 Genomes are partitioned into topologically associating domains (TADs). Here the authors present single-nucleus Hi-C maps in Drosophila at 10 kb resolution, demonstrating the presence of chromatin compartments in individual nuclei, and partitioning of the
Sergey V. Ulianov +17 more
doaj +1 more source
DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell
Genome Biology, 2021 Topologically associating domains (TAD) are a key structure of the 3D mammalian genomes. However, the prevalence and dynamics of TAD-like domains in single cells remain elusive.
Xiao Li +3 more
doaj +1 more source
eLife, 2018 We have developed a generally adaptable, novel high-throughput Viral Chromosome Conformation Capture assay (V3C-seq) for use in trans that allows genome-wide identification of the direct interactions of a lytic virus genome with distinct regions of the ...
Kinjal Majumder +6 more
doaj +1 more source
A comparison of topologically associating domain callers over mammals at high resolution
BMC Bioinformatics, 2022 Background Topologically associating domains (TADs) are locally highly-interacting genome regions, which also play a critical role in regulating gene expression in the cell. TADs have been first identified while investigating the 3D genome structure over
Emre Sefer
doaj +1 more source
Molecular Oncology, EarlyView.The novel styrylquinazolinone‐based molecule W1B effectively suppresses glioblastoma by inhibiting IGF1R and EGFR. In high‐glucose microenvironments driving tumor resistance, W1B acts synergistically with the EGFR inhibitor dacomitinib. This combination safely blocks compensatory survival signaling in zebrafish xenograft models. Showcasing promising in
Patryk Rurka +9 more
wiley +1 more source