Literature DB >> 22169023

Enhancer and promoter interactions-long distance calls.

Ivan Krivega1, Ann Dean.   

Abstract

In metazoans, enhancers of gene transcription must often exert their effects over tens of kilobases of DNA. Over the past decade it has become clear that to do this, enhancers come into close proximity with target promoters with the looping away of intervening sequences. In a few cases proteins that are involved in the establishment or maintenance of these loops have been revealed but how the proper gene target is selected remains mysterious. Chromatin insulators had been appreciated as elements that play a role in enhancer fidelity through their enhancer blocking or barrier activity. However, recent work suggests more direct participation of insulators in enhancer-gene interactions. The emerging view begins to incorporate transcription activation by distant enhancers with large scale nuclear architecture and subnuclear movement. Published by Elsevier Ltd.

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Year:  2011        PMID: 22169023      PMCID: PMC3342482          DOI: 10.1016/j.gde.2011.11.001

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   5.578


  64 in total

1.  Intergenic transcription and developmental remodeling of chromatin subdomains in the human beta-globin locus.

Authors:  J Gribnau; K Diderich; S Pruzina; R Calzolari; P Fraser
Journal:  Mol Cell       Date:  2000-02       Impact factor: 17.970

Review 2.  How cohesin and CTCF cooperate in regulating gene expression.

Authors:  Kerstin S Wendt; Jan-Michael Peters
Journal:  Chromosome Res       Date:  2009-03-24       Impact factor: 5.239

3.  Capturing chromosome conformation.

Authors:  Job Dekker; Karsten Rippe; Martijn Dekker; Nancy Kleckner
Journal:  Science       Date:  2002-02-15       Impact factor: 47.728

4.  Long-range chromatin regulatory interactions in vivo.

Authors:  David Carter; Lyubomira Chakalova; Cameron S Osborne; Yan-feng Dai; Peter Fraser
Journal:  Nat Genet       Date:  2002-11-11       Impact factor: 38.330

5.  Distinct mechanisms control RNA polymerase II recruitment to a tissue-specific locus control region and a downstream promoter.

Authors:  K D Johnson; H M Christensen; B Zhao; E H Bresnick
Journal:  Mol Cell       Date:  2001-08       Impact factor: 17.970

6.  Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells.

Authors:  Stefan Schoenfelder; Tom Sexton; Lyubomira Chakalova; Nathan F Cope; Alice Horton; Simon Andrews; Sreenivasulu Kurukuti; Jennifer A Mitchell; David Umlauf; Daniela S Dimitrova; Christopher H Eskiw; Yanquan Luo; Chia-Lin Wei; Yijun Ruan; James J Bieker; Peter Fraser
Journal:  Nat Genet       Date:  2009-12-13       Impact factor: 38.330

7.  An oestrogen-receptor-alpha-bound human chromatin interactome.

Authors:  Melissa J Fullwood; Mei Hui Liu; You Fu Pan; Jun Liu; Han Xu; Yusoff Bin Mohamed; Yuriy L Orlov; Stoyan Velkov; Andrea Ho; Poh Huay Mei; Elaine G Y Chew; Phillips Yao Hui Huang; Willem-Jan Welboren; Yuyuan Han; Hong Sain Ooi; Pramila N Ariyaratne; Vinsensius B Vega; Yanquan Luo; Peck Yean Tan; Pei Ye Choy; K D Senali Abayratna Wansa; Bing Zhao; Kar Sian Lim; Shi Chi Leow; Jit Sin Yow; Roy Joseph; Haixia Li; Kartiki V Desai; Jane S Thomsen; Yew Kok Lee; R Krishna Murthy Karuturi; Thoreau Herve; Guillaume Bourque; Hendrik G Stunnenberg; Xiaoan Ruan; Valere Cacheux-Rataboul; Wing-Kin Sung; Edison T Liu; Chia-Lin Wei; Edwin Cheung; Yijun Ruan
Journal:  Nature       Date:  2009-11-05       Impact factor: 49.962

8.  Architectural roles of multiple chromatin insulators at the human apolipoprotein gene cluster.

Authors:  Tsuyoshi Mishiro; Ko Ishihara; Shinjiro Hino; Shuichi Tsutsumi; Hiroyuki Aburatani; Katsuhiko Shirahige; Yoshikazu Kinoshita; Mitsuyoshi Nakao
Journal:  EMBO J       Date:  2009-03-26       Impact factor: 11.598

9.  Comprehensive mapping of long-range interactions reveals folding principles of the human genome.

Authors:  Erez Lieberman-Aiden; Nynke L van Berkum; Louise Williams; Maxim Imakaev; Tobias Ragoczy; Agnes Telling; Ido Amit; Bryan R Lajoie; Peter J Sabo; Michael O Dorschner; Richard Sandstrom; Bradley Bernstein; M A Bender; Mark Groudine; Andreas Gnirke; John Stamatoyannopoulos; Leonid A Mirny; Eric S Lander; Job Dekker
Journal:  Science       Date:  2009-10-09       Impact factor: 47.728

10.  Cohesins form chromosomal cis-interactions at the developmentally regulated IFNG locus.

Authors:  Suzana Hadjur; Luke M Williams; Natalie K Ryan; Bradley S Cobb; Tom Sexton; Peter Fraser; Amanda G Fisher; Matthias Merkenschlager
Journal:  Nature       Date:  2009-05-20       Impact factor: 49.962

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  108 in total

1.  Evidence for local regulatory control of escape from imprinted X chromosome inactivation.

Authors:  Joshua W Mugford; Joshua Starmer; Rex L Williams; J Mauro Calabrese; Piotr Mieczkowski; Della Yee; Terry Magnuson
Journal:  Genetics       Date:  2014-03-19       Impact factor: 4.562

2.  Evolution of transcriptional enhancers and animal diversity.

Authors:  Marcelo Rubinstein; Flávio S J de Souza
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2013-11-11       Impact factor: 6.237

3.  Long noncoding RNA MRUL promotes ABCB1 expression in multidrug-resistant gastric cancer cell sublines.

Authors:  Ying Wang; Dexin Zhang; Kaichun Wu; Qingchuan Zhao; Yongzhan Nie; Daiming Fan
Journal:  Mol Cell Biol       Date:  2014-06-23       Impact factor: 4.272

Review 4.  Manipulating nuclear architecture.

Authors:  Wulan Deng; Gerd A Blobel
Journal:  Curr Opin Genet Dev       Date:  2013-12-12       Impact factor: 5.578

5.  HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples.

Authors:  Fritz Lekschas; Benjamin Bach; Peter Kerpedjiev; Nils Gehlenborg; Hanspeter Pfister
Journal:  IEEE Trans Vis Comput Graph       Date:  2017-08-29       Impact factor: 4.579

6.  Integration of Enhancer-Promoter Interactions with GWAS Summary Results Identifies Novel Schizophrenia-Associated Genes and Pathways.

Authors:  Chong Wu; Wei Pan
Journal:  Genetics       Date:  2018-05-04       Impact factor: 4.562

Review 7.  Large-scale chromatin organization: the good, the surprising, and the still perplexing.

Authors:  Andrew S Belmont
Journal:  Curr Opin Cell Biol       Date:  2013-11-13       Impact factor: 8.382

Review 8.  Transcriptional regulation and its misregulation in disease.

Authors:  Tong Ihn Lee; Richard A Young
Journal:  Cell       Date:  2013-03-14       Impact factor: 41.582

9.  RNA in the loop.

Authors:  Johnny T Y Kung; Jeannie T Lee
Journal:  Dev Cell       Date:  2013-03-25       Impact factor: 12.270

10.  Analysis of Polygenic Mutants Suggests a Role for Mediator in Regulating Transcriptional Activation Distance in Saccharomyces cerevisiae.

Authors:  Caitlin T Reavey; Mark J Hickman; Krista C Dobi; David Botstein; Fred Winston
Journal:  Genetics       Date:  2015-08-17       Impact factor: 4.562

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