Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Mapping chromatin loops in single cells.

Literature DB >> 35400543

Mapping chromatin loops in single cells.

Abstract

Recent advances in high-throughput chromatin conformation capture (Hi-C) technologies at the single-cell level enable the identification of cell type-specific chromatin loops directly from complex tissues. This may help to interpret noncoding variants identified by genome-wide association studies (GWAS) in disease-relevant cell types. We briefly review current experimental and computational strategies for mapping chromatin loops in single cells.

Entities: Chemical

Keywords: chromatin loops; chromatin spatial organization; single-cell Hi-C

Mesh：

Substances：
Chromatin

Year: 2022 PMID： 35400543 PMCID： PMC9249025 DOI： 10.1016/j.tig.2022.03.007

Source DB: PubMed Journal: Trends Genet ISSN： 0168-9525 Impact factor: 11.821

19 in total

Review 1. Regulation of disease-associated gene expression in the 3D genome.

Authors: Peter Hugo Lodewijk Krijger; Wouter de Laat
Journal: Nat Rev Mol Cell Biol Date: 2016-11-09 Impact factor: 94.444

2. Changes in genome architecture and transcriptional dynamics progress independently of sensory experience during post-natal brain development.

Authors: Longzhi Tan; Wenping Ma; Honggui Wu; Yinghui Zheng; Dong Xing; Ritchie Chen; Xiang Li; Nicholas Daley; Karl Deisseroth; X Sunney Xie
Journal: Cell Date: 2021-01-18 Impact factor: 41.582

3. Parental-to-embryo switch of chromosome organization in early embryogenesis.

Authors: Samuel Collombet; Noémie Ranisavljevic; Takashi Nagano; Csilla Varnai; Tarak Shisode; Wing Leung; Tristan Piolot; Rafael Galupa; Maud Borensztein; Nicolas Servant; Peter Fraser; Katia Ancelin; Edith Heard
Journal: Nature Date: 2020-03-25 Impact factor: 49.962

4. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.

Authors: Suhas S P Rao; Miriam H Huntley; Neva C Durand; Elena K Stamenova; Ivan D Bochkov; James T Robinson; Adrian L Sanborn; Ido Machol; Arina D Omer; Eric S Lander; Erez Lieberman Aiden
Journal: Cell Date: 2014-12-11 Impact factor: 41.582

5. Cell-cycle dynamics of chromosomal organization at single-cell resolution.

Authors: Takashi Nagano; Yaniv Lubling; Csilla Várnai; Carmel Dudley; Wing Leung; Yael Baran; Netta Mendelson Cohen; Steven Wingett; Peter Fraser; Amos Tanay
Journal: Nature Date: 2017-07-05 Impact factor: 49.962

6. 3D structures of individual mammalian genomes studied by single-cell Hi-C.

Authors: Tim J Stevens; David Lando; Srinjan Basu; Liam P Atkinson; Yang Cao; Steven F Lee; Martin Leeb; Kai J Wohlfahrt; Wayne Boucher; Aoife O'Shaughnessy-Kirwan; Julie Cramard; Andre J Faure; Meryem Ralser; Enrique Blanco; Lluis Morey; Miriam Sansó; Matthieu G S Palayret; Ben Lehner; Luciano Di Croce; Anton Wutz; Brian Hendrich; Dave Klenerman; Ernest D Laue
Journal: Nature Date: 2017-03-13 Impact factor: 49.962

Mapping chromatin loops in single cells.

Review 1. Regulation of disease-associated gene expression in the 3D genome.

2. Changes in genome architecture and transcriptional dynamics progress independently of sensory experience during post-natal brain development.

3. Parental-to-embryo switch of chromosome organization in early embryogenesis.

4. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.

5. Cell-cycle dynamics of chromosomal organization at single-cell resolution.

6. 3D structures of individual mammalian genomes studied by single-cell Hi-C.

7. Robust single-cell Hi-C clustering by convolution- and random-walk-based imputation.

8. SnapHiC: a computational pipeline to identify chromatin loops from single-cell Hi-C data.

9. Multiscale and integrative single-cell Hi-C analysis with Higashi.

10. Joint profiling of DNA methylation and chromatin architecture in single cells.

Review 1. Understanding Regulatory Mechanisms of Brain Function and Disease through 3D Genome Organization.

Review 2. Understanding the function of regulatory DNA interactions in the interpretation of non-coding GWAS variants.