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Mapping the 3D genome architecture [PDF]
Computational and Structural Biotechnology JournalThe spatial organization of the genome plays a critical role in regulating gene expression, cellular differentiation, and genome stability. This review provides an in-depth examination of the methodologies, computational tools, and frameworks developed ...
Ghazaleh Tavallaee, Elias Orouji
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Scientific Reports, 2022 Our genomes are highly organized spatially in three-dimensions (3D). In interphase nuclei, the genome is anchored and regulated by various nuclear scaffolds and structures, including the nuclear lamina at the nuclear edge, and nucleoli located more ...
Asli Silahtaroglu +2 more
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Modeling the 3D genome of plants
Nucleus, 2021 Chromosomes are the carriers of inheritable traits and define cell function and development. This is not only based on the linear DNA sequence of chromosomes but also on the additional molecular information they are associated with, including the ...
Marco Di Stefano, Hans-Wilhelm Nützmann
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3D Genome Engineering: Current Advances and Therapeutic Opportunities in Human Diseases [PDF]
ResearchDynamic chromatin 3-dimensional (3D) conformation is a key mechanism regulating gene expression and cellular function during development and disease.
Xing Jiang +4 more
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Structural variation drives enhancer hijacking via 3D genome disruption in ccRCC [PDF]
npj Digital MedicineClear cell renal cell carcinoma (ccRCC) is an aggressive malignancy associated with single-nucleotide variants in VHL, PBRM1, and SETD2. However, the role of structural variation (SV)—which have broader genomic impacts—and 3D genome architecture in ccRCC
Yu Dong +24 more
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Folding Features and Dynamics of 3D Genome Architecture in Plant Fungal Pathogens
Microbiology Spectrum, 2022 The folding and dynamics of three-dimensional (3D) genome organization are fundamental for eukaryotes executing genome functions but have been largely unexplored in nonmodel fungi.
Chongjing Xia +10 more
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Three-dimensional chromatin architecture in plants – General features and novelties
European Journal of Cell Biology, 2023 Research on the three-dimensional (3D) structure of the genome and its distribution within the nuclear space has made a big leap in the last two decades.
Edouard Tourdot, Stefan Grob
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Novel biological insights revealed from the investigation of multiscale genome architecture
Computational and Structural Biotechnology Journal, 2023 Gene expression and cell fate determination require precise and coordinated epigenetic regulation. The complex three-dimensional (3D) genome organization plays a critical role in transcription in myriad biological processes. A wide range of architectural
Tianyi Ding, He Zhang
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Cell Reports, 2021 Summary: DNA replication timing and three-dimensional (3D) genome organization are associated with distinct epigenome patterns across large domains. However, whether alterations in the epigenome, in particular cancer-related DNA hypomethylation, affects ...
Qian Du +23 more
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Pan-3D genome analysis reveals structural and functional differentiation of soybean genomes
Genome Biology, 2023 Background High-order chromatin structure plays important roles in gene regulation. However, the diversity of the three-dimensional (3D) genome across plant accessions are seldom reported.
Lingbin Ni +11 more
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