Results 31 to 40 of about 1,201,498 (234)

Measuring the three-dimensional structural properties of topologically associating domains

2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2018
Genome topologically associating domains (TADs) are mega base pair (Mbp) sized genomic regions that may be the structural and functional units of the genome.
Liu, Tong, Wang, Zheng
core   +3 more sources

The role of epigenetic modifications, long-range contacts, enhancers and topologically associating domains in the regulation of glioma grade-specific genes [PDF]

Scientific Reports, 2021
Genome-wide studies have uncovered specific genetic alterations, transcriptomic patterns and epigenetic profiles associated with different glioma types. We have recently created a unique atlas encompassing genome-wide profiles of open chromatin, histone ...
Ilona E. Grabowicz, Bartek Wilczyński, Bożena Kamińska, Adria-Jaume Roura, Bartosz Wojtaś, Michał J. Dąbrowski   +5 more
doaj   +2 more sources

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.
T. Piolot, G. Tiana, A. Amitai, D. Holcman, L. Giorgetti, T. Pollex, E. Heard, Holcman D, Giorgetti L, Tiana G, Amitai A, Piolot T, Pollex T, Heard E   +13 more
core   +5 more sources

Topologically associating domains define the impact of de novo promoter variants on autism spectrum disorder risk [PDF]

Cell Genomics
Summary: Whole-genome sequencing (WGS) studies of autism spectrum disorder (ASD) have demonstrated the roles of rare promoter de novo variants (DNVs). However, most promoter DNVs in ASD are not located immediately upstream of known ASD genes.
Takumi Nakamura, Junko Ueda, Shota Mizuno, Kurara Honda, An-a Kazuno, Hirona Yamamoto, Tomonori Hara, Atsushi Takata   +7 more
doaj   +2 more sources

Evolutionary stability of topologically associating domains is associated with conserved gene regulation [PDF]

BMC Biology, 2018
Background The human genome is highly organized in the three-dimensional nucleus. Chromosomes fold locally into topologically associating domains (TADs) defined by increased intra-domain chromatin contacts.
Jan Krefting, Miguel A. Andrade-Navarro, Jonas Ibn-Salem   +2 more
doaj   +2 more sources

Gene regulation during development in the light of topologically associating domains

WIREs Developmental Biology, 2016
During embryonic development, complex transcriptional programs govern the precision of gene expression. Many key developmental genes are regulated via cis-regulatory elements that are located far away in the linear genome.
François Spitz, Spitz, François,, Andreas Hörnblad, Silvia Remeseiro, Remeseiro, Silvia,, Hörnblad, Andreas,   +5 more
core   +3 more sources

Author Correction: The role of epigenetic modifications, long-range contacts, enhancers and topologically associating domains in the regulation of glioma grade-specific genes [PDF]

Scientific Reports, 2021
Ilona E. Grabowicz, Bartek Wilczyński, Bożena Kamińska, Adria‑Jaume Roura, Bartosz Wojtaś, Michał J. Dąbrowski   +5 more
doaj   +2 more sources

Decoding topologically associating domains with ultra-low resolution Hi-C data by graph structural entropy [PDF]

Nature Communications, 2018
Accurate detection of TADs requires ultra-deep sequencing and sophisticated normalisation procedures, which limits the analysis of Hi-C data. Here the authors develop a normalisation-free method to decode the domains of chromosomes (deDoc) that utilizes ...
Angsheng Li, Xianchen Yin, Bingxiang Xu, Danyang Wang, Jimin Han, Yi Wei, Yun Deng, Ying Xiong, Zhihua Zhang   +8 more
doaj   +2 more sources

Functional Similarities of Protein-Coding Genes in Topologically Associating Domains and Spatially-Proximate Genomic Regions. [PDF]

Genes (Basel), 2022
Topologically associating domains (TADs) are the structural and functional units of the genome. However, the functions of protein-coding genes existing in the same or different TADs have not been fully investigated.
Zhao C, Liu T, Wang Z.
europepmc   +2 more sources

Topologically associating domains of chromatin on single-cell Hi-C data: a survey of bioinformatic tools and applications in the light of artificial intelligence. [PDF]

Front Genet
Lyu H, Li Y, Chen X, Liu Y, Liu E, Cheng X.   +5 more
europepmc   +2 more sources