Understanding Spatial Genome Organization: Methods and Insights
The manner by which eukaryotic genomes are packaged into nuclei while maintaining crucial nuclear functions remains one of the fundamental mysteries in biology. Over the last ten years, we have witnessed rapid advances in both microscopic and nucleic acid-based approaches to map genome architecture,...
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| Format: | Article |
| Language: | English |
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Oxford University Press
2016-02-01
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| Series: | Genomics, Proteomics & Bioinformatics |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1672022916000395 |
| _version_ | 1827159306971119616 |
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| author | Vijay Ramani Jay Shendure Zhijun Duan |
| author_facet | Vijay Ramani Jay Shendure Zhijun Duan |
| author_sort | Vijay Ramani |
| collection | DOAJ |
| description | The manner by which eukaryotic genomes are packaged into nuclei while maintaining crucial nuclear functions remains one of the fundamental mysteries in biology. Over the last ten years, we have witnessed rapid advances in both microscopic and nucleic acid-based approaches to map genome architecture, and the application of these approaches to the dissection of higher-order chromosomal structures has yielded much new information. It is becoming increasingly clear, for example, that interphase chromosomes form stable, multilevel hierarchical structures. Among them, self-associating domains like so-called topologically associating domains (TADs) appear to be building blocks for large-scale genomic organization. This review describes features of these broadly-defined hierarchical structures, insights into the mechanisms underlying their formation, our current understanding of how interactions in the nuclear space are linked to gene regulation, and important future directions for the field. |
| first_indexed | 2024-03-08T17:48:40Z |
| format | Article |
| id | doaj.art-ee5787b7071149bd8aefc2665403c26d |
| institution | Directory Open Access Journal |
| issn | 1672-0229 |
| language | English |
| last_indexed | 2025-03-20T23:55:03Z |
| publishDate | 2016-02-01 |
| publisher | Oxford University Press |
| record_format | Article |
| series | Genomics, Proteomics & Bioinformatics |
| spelling | doaj.art-ee5787b7071149bd8aefc2665403c26d2024-08-03T11:58:49ZengOxford University PressGenomics, Proteomics & Bioinformatics1672-02292016-02-0114172010.1016/j.gpb.2016.01.002Understanding Spatial Genome Organization: Methods and InsightsVijay Ramani0Jay Shendure1Zhijun Duan2Department of Genome Sciences, University of Washington, Seattle, WA 98195, USADepartment of Genome Sciences, University of Washington, Seattle, WA 98195, USAInstitute for Stem Cell and Regenerative Medicine, University of Washington, Seattle, WA 98109, USAThe manner by which eukaryotic genomes are packaged into nuclei while maintaining crucial nuclear functions remains one of the fundamental mysteries in biology. Over the last ten years, we have witnessed rapid advances in both microscopic and nucleic acid-based approaches to map genome architecture, and the application of these approaches to the dissection of higher-order chromosomal structures has yielded much new information. It is becoming increasingly clear, for example, that interphase chromosomes form stable, multilevel hierarchical structures. Among them, self-associating domains like so-called topologically associating domains (TADs) appear to be building blocks for large-scale genomic organization. This review describes features of these broadly-defined hierarchical structures, insights into the mechanisms underlying their formation, our current understanding of how interactions in the nuclear space are linked to gene regulation, and important future directions for the field.http://www.sciencedirect.com/science/article/pii/S1672022916000395ChromatinChromosomeEpigenomics4D nucleomeHi-C |
| spellingShingle | Vijay Ramani Jay Shendure Zhijun Duan Understanding Spatial Genome Organization: Methods and Insights Genomics, Proteomics & Bioinformatics Chromatin Chromosome Epigenomics 4D nucleome Hi-C |
| title | Understanding Spatial Genome Organization: Methods and Insights |
| title_full | Understanding Spatial Genome Organization: Methods and Insights |
| title_fullStr | Understanding Spatial Genome Organization: Methods and Insights |
| title_full_unstemmed | Understanding Spatial Genome Organization: Methods and Insights |
| title_short | Understanding Spatial Genome Organization: Methods and Insights |
| title_sort | understanding spatial genome organization methods and insights |
| topic | Chromatin Chromosome Epigenomics 4D nucleome Hi-C |
| url | http://www.sciencedirect.com/science/article/pii/S1672022916000395 |
| work_keys_str_mv | AT vijayramani understandingspatialgenomeorganizationmethodsandinsights AT jayshendure understandingspatialgenomeorganizationmethodsandinsights AT zhijunduan understandingspatialgenomeorganizationmethodsandinsights |