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Literature DB >> 28799793

Towards quantitative analysis of gene regulation by enhancers.

Ekaterina V Nizovtseva¹, Stefjord Todolli², Wilma K Olson², Vasily M Studitsky^1,3,4.

Abstract

Enhancers are regulatory DNA sequences that can activate transcription over large distances. Recent studies have revealed the widespread role of distant activation in eukaryotic gene regulation and in the development of various human diseases, including cancer. Here we review recent progress in the field, focusing on new experimental and computational approaches that quantify the role of chromatin structure and dynamics during enhancer-promoter interactions in vitro and in vivo.

Entities: Disease Species

Keywords: activation; distant action; enhancers; mechanisms; promoters

Mesh：

Substances：
Chromatin

Year: 2017 PMID： 28799793 PMCID： PMC5585842 DOI： 10.2217/epi-2017-0061

Source DB: PubMed Journal: Epigenomics ISSN： 1750-192X Impact factor: 4.778

132 in total

1. Inhibition of Super-Enhancer Activity in Autoinflammatory Site-Derived T Cells Reduces Disease-Associated Gene Expression.

Authors: Janneke G C Peeters; Stephin J Vervoort; Sander C Tan; Gerdien Mijnheer; Sytze de Roock; Sebastiaan J Vastert; Edward E S Nieuwenhuis; Femke van Wijk; Berent J Prakken; Menno P Creyghton; Paul J Coffer; Michal Mokry; Jorg van Loosdregt
Journal: Cell Rep Date: 2015-09-17 Impact factor: 9.423

2. EM measurements define the dimensions of the "30-nm" chromatin fiber: evidence for a compact, interdigitated structure.

Authors: Philip J J Robinson; Louise Fairall; Van A T Huynh; Daniela Rhodes
Journal: Proc Natl Acad Sci U S A Date: 2006-04-14 Impact factor: 11.205

3. The centromeric nucleosome of budding yeast is perfectly positioned and covers the entire centromere.

Authors: Hope A Cole; Bruce H Howard; David J Clark
Journal: Proc Natl Acad Sci U S A Date: 2011-07-18 Impact factor: 11.205

4. Crystal structure of the nucleosome core particle at 2.8 A resolution.

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Journal: Nature Date: 1997-09-18 Impact factor: 49.962

5. Super-enhancers in the control of cell identity and disease.

Authors: Denes Hnisz; Brian J Abraham; Tong Ihn Lee; Ashley Lau; Violaine Saint-André; Alla A Sigova; Heather A Hoke; Richard A Young
Journal: Cell Date: 2013-10-10 Impact factor: 41.582

6. Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development.

Authors: Stefan Bonn; Robert P Zinzen; Charles Girardot; E Hilary Gustafson; Alexis Perez-Gonzalez; Nicolas Delhomme; Yad Ghavi-Helm; Bartek Wilczyński; Andrew Riddell; Eileen E M Furlong
Journal: Nat Genet Date: 2012-01-08 Impact factor: 38.330

7. Selective inhibition of tumor oncogenes by disruption of super-enhancers.

Authors: Jakob Lovén; Heather A Hoke; Charles Y Lin; Ashley Lau; David A Orlando; Christopher R Vakoc; James E Bradner; Tong Ihn Lee; Richard A Young
Journal: Cell Date: 2013-04-11 Impact factor: 41.582

8. Chemical map of Schizosaccharomyces pombe reveals species-specific features in nucleosome positioning.

Authors: Georgette Moyle-Heyrman; Tetiana Zaichuk; Liqun Xi; Quanwei Zhang; Olke C Uhlenbeck; Robert Holmgren; Jonathan Widom; Ji-Ping Wang
Journal: Proc Natl Acad Sci U S A Date: 2013-11-25 Impact factor: 11.205

9. A map of nucleosome positions in yeast at base-pair resolution.

Authors: Kristin Brogaard; Liqun Xi; Ji-Ping Wang; Jonathan Widom
Journal: Nature Date: 2012-06-28 Impact factor: 49.962

10. Proteomic Analysis of the Mediator Complex Interactome in Saccharomyces cerevisiae.

Authors: Henriette Uthe; Jens T Vanselow; Andreas Schlosser
Journal: Sci Rep Date: 2017-02-27 Impact factor: 4.379

9 in total

1. [Opposite Effects of Histone H1 and HMGN5 Protein on Distant Interactions in Chromatin].

Authors: E V Nizovtseva; Y S Polikanov; O I Kulaeva; N Clauvelin; Y V Postnikov; W K Olson; V M Studitsky
Journal: Mol Biol (Mosk) Date: 2019 Nov-Dec

2. Identification and Validation of Apparent Imbalanced Epi-lncRNAs Prognostic Model Based on Multi-Omics Data in Pancreatic Cancer.

Authors: Mujing Ke
Journal: Front Mol Biosci Date: 2022-05-12

3. The anti-cancer drugs curaxins target spatial genome organization.

Authors: Omar L Kantidze; Artem V Luzhin; Ekaterina V Nizovtseva; Alfiya Safina; Maria E Valieva; Arkadiy K Golov; Artem K Velichko; Alexander V Lyubitelev; Alexey V Feofanov; Katerina V Gurova; Vasily M Studitsky; Sergey V Razin
Journal: Nat Commun Date: 2019-03-29 Impact factor: 14.919

Review 4. Dysregulated Transcriptional Control in Prostate Cancer.

Authors: Simon J Baumgart; Ekaterina Nevedomskaya; Bernard Haendler
Journal: Int J Mol Sci Date: 2019-06-13 Impact factor: 5.923

5. Distinct IL-1α-responsive enhancers promote acute and coordinated changes in chromatin topology in a hierarchical manner.

Authors: Sinah-Sophia Weiterer; Johanna Meier-Soelch; Theodore Georgomanolis; Athanasia Mizi; Anna Beyerlein; Hendrik Weiser; Lilija Brant; Christin Mayr-Buro; Liane Jurida; Knut Beuerlein; Helmut Müller; Axel Weber; Ulas Tenekeci; Oliver Dittrich-Breiholz; Marek Bartkuhn; Andrea Nist; Thorsten Stiewe; Wilfred Fj van IJcken; Tabea Riedlinger; M Lienhard Schmitz; Argyris Papantonis; Michael Kracht
Journal: EMBO J Date: 2019-11-07 Impact factor: 11.598