Results 21 to 30 of about 388,478 (262)
Nature Methods, 2016 DNA folding shapes gene expression. Emerging techniques promise to reveal the intricacies of this architectural language of chromosomes.
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3DIV update for 2021: a comprehensive resource of 3D genome and 3D cancer genome [PDF]
Nucleic Acids Research, 2020 Abstract Three-dimensional (3D) genome organization is tightly coupled with gene regulation in various biological processes and diseases. In cancer, various types of large-scale genomic rearrangements can disrupt the 3D genome, leading to oncogenic gene expression.
Kyukwang Kim +6 more
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Role of lamins in 3D genome organization and global gene expression
Nucleus, 2019 Genome-wide mapping of lamin-B1-genome interactions has shown that gene-poor and transcriptionally inactive genomic regions are associated with the nuclear lamina.
Youngjo Kim, Xiaobin Zheng, Yixian Zheng
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3D Genome Tuner: Compare Multiple Circular Genomes in a 3D Context
Genomics, Proteomics & Bioinformatics, 2009 Abstract Circular genomes, being the largest proportion of sequenced genomes, play an important role in genome analysis. However, traditional 2D circular map only provides an overview and annotations of genome but does not offer feature-based comparison. For remedying these shortcomings, we developed 3D Genome Tuner, a hybrid of circular
Qi Wang 0072, Qun Liang, Xiuqing Zhang
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Principles of 3D Compartmentalization of the Human Genome [PDF]
Cell Reports, 2020 Abstract Chromatin is organized in the nucleus by CTCF loops and compartmental domains, the latter of which contain sequences bound by proteins capable of mediating interactions among themselves. While compartmental domains are one of the most prominent features of genome 3D organization at the chromosome scale, we ...
Michael H. Nichols, Victor G. Corces
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Interplay of lamin A and lamin B LADs on the radial positioning of chromatin
Nucleus, 2019 Immunosuppressive drugs such as cyclosporin A (CsA) can elicit hepatotoxicity by affecting gene expression. Here, we address the link between CsA and large-scale chromatin organization in HepG2 hepatocarcinoma cells.
Frida Forsberg +3 more
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Enhancer Function in the 3D Genome
Genes, 2023 In this review, we consider various aspects of enhancer functioning in the context of the 3D genome. Particular attention is paid to the mechanisms of enhancer-promoter communication and the significance of the spatial juxtaposition of enhancers and promoters in 3D nuclear space.
Sergey V. Razin +2 more
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The era of 3D and spatial genomics
Trends in Genetics, 2022 Over a decade ago the advent of high-throughput chromosome conformation capture (Hi-C) sparked a new era of 3D genomics. Since then the number of methods for mapping the 3D genome has flourished, enabling an ever-increasing understanding of how DNA is packaged in the nucleus and how the spatiotemporal organization of the genome orchestrates its vital ...
Bouwman, Britta A.M. +2 more
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Acta Pharmaceutica Sinica B, 2021 The three-dimensional (3D) conformation of chromatin is integral to the precise regulation of gene expression. The 3D genome and genomic variations in non-alcoholic fatty liver disease (NAFLD) are largely unknown, despite their key roles in cellular ...
Lina Xu +5 more
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Mechanical determinants of chromatin topology and gene expression
Nucleus, 2022 The compaction of linear DNA into micrometer-sized nuclear boundaries involves the establishment of specific three-dimensional (3D) DNA structures complexed with histone proteins that form chromatin.
Rajiv Kumar Jha +2 more
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