Literature DB >> 23779110

Biological implications and regulatory mechanisms of long-range chromosomal interactions.

Zong Wei1, David Huang, Fan Gao, Wen-Hsuan Chang, Woojin An, Gerhard A Coetzee, Kai Wang, Wange Lu.   

Abstract

Development of high-throughput sequencing-based methods has enabled us to examine nuclear architecture at unprecedented resolution, allowing further examination of the function of long-range chromosomal interactions. Here, we review methods used to investigate novel long-range chromosomal interactions and genome-wide organization of chromatin. We further discuss transcriptional activation and silencing in relation to organization and positioning of gene loci and regulation of chromatin organization through protein complexes and noncoding RNAs.

Keywords:  Chromatin; Chromatin Regulation; Chromatin Structure; Chromosome Conformation Capture; Nuclear Organization; Nuclear Structure

Mesh：

Substances：

Year:  2013        PMID： 23779110      PMCID： PMC3829327          DOI： 10.1074/jbc.R113.485292

Source DB:  PubMed          Journal:  J Biol Chem        ISSN： 0021-9258            Impact factor:   5.157


  98 in total

Review 1.  A decade of 3C technologies: insights into nuclear organization.

Authors:  Elzo de Wit; Wouter de Laat
Journal:  Genes Dev       Date:  2012-01-01       Impact factor: 11.361

Review 2.  Gracefully ageing at 50, X-chromosome inactivation becomes a paradigm for RNA and chromatin control.

Authors:  Jeannie T Lee
Journal:  Nat Rev Mol Cell Biol       Date:  2011-11-23       Impact factor: 94.444

3.  Translocation-capture sequencing reveals the extent and nature of chromosomal rearrangements in B lymphocytes.

Authors:  Isaac A Klein; Wolfgang Resch; Mila Jankovic; Thiago Oliveira; Arito Yamane; Hirotaka Nakahashi; Michela Di Virgilio; Anne Bothmer; Andre Nussenzweig; Davide F Robbiani; Rafael Casellas; Michel C Nussenzweig
Journal:  Cell       Date:  2011-09-30       Impact factor: 41.582

4.  Proximity among distant regulatory elements at the beta-globin locus requires GATA-1 and FOG-1.

Authors:  Christopher R Vakoc; Danielle L Letting; Nele Gheldof; Tomoyuki Sawado; M A Bender; Mark Groudine; Mitchell J Weiss; Job Dekker; Gerd A Blobel
Journal:  Mol Cell       Date:  2005-02-04       Impact factor: 17.970

5.  YY1 tethers Xist RNA to the inactive X nucleation center.

Authors:  Yesu Jeon; Jeannie T Lee
Journal:  Cell       Date:  2011-07-08       Impact factor: 41.582

6.  Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation.

Authors:  Guoliang Li; Xiaoan Ruan; Raymond K Auerbach; Kuljeet Singh Sandhu; Meizhen Zheng; Ping Wang; Huay Mei Poh; Yufen Goh; Joanne Lim; Jingyao Zhang; Hui Shan Sim; Su Qin Peh; Fabianus Hendriyan Mulawadi; Chin Thing Ong; Yuriy L Orlov; Shuzhen Hong; Zhizhuo Zhang; Steve Landt; Debasish Raha; Ghia Euskirchen; Chia-Lin Wei; Weihong Ge; Huaien Wang; Carrie Davis; Katherine I Fisher-Aylor; Ali Mortazavi; Mark Gerstein; Thomas Gingeras; Barbara Wold; Yi Sun; Melissa J Fullwood; Edwin Cheung; Edison Liu; Wing-Kin Sung; Michael Snyder; Yijun Ruan
Journal:  Cell       Date:  2012-01-20       Impact factor: 41.582

7.  Variegated gene expression caused by cell-specific long-range DNA interactions.

Authors:  Daan Noordermeer; Elzo de Wit; Petra Klous; Harmen van de Werken; Marieke Simonis; Melissa Lopez-Jones; Bert Eussen; Annelies de Klein; Robert H Singer; Wouter de Laat
Journal:  Nat Cell Biol       Date:  2011-06-26       Impact factor: 28.824

8.  Interchromosomal associations between alternatively expressed loci.

Authors:  Charalampos G Spilianakis; Maria D Lalioti; Terrence Town; Gap Ryol Lee; Richard A Flavell
Journal:  Nature       Date:  2005-05-08       Impact factor: 49.962

Review 9.  CTCF: insights into insulator function during development.

Authors:  Martin Herold; Marek Bartkuhn; Rainer Renkawitz
Journal:  Development       Date:  2012-03       Impact factor: 6.868

10.  Spatial organization of the mouse genome and its role in recurrent chromosomal translocations.

Authors:  Yu Zhang; Rachel Patton McCord; Yu-Jui Ho; Bryan R Lajoie; Dominic G Hildebrand; Aline C Simon; Michael S Becker; Frederick W Alt; Job Dekker
Journal:  Cell       Date:  2012-02-16       Impact factor: 41.582
View more
  9 in total

1.  Identification of Gene Positioning Factors Using High-Throughput Imaging Mapping.

Authors:  Sigal Shachar; Ty C Voss; Gianluca Pegoraro; Nicholas Sciascia; Tom Misteli
Journal:  Cell       Date:  2015-08-13       Impact factor: 41.582

2.  Dynamic estrogen receptor interactomes control estrogen-responsive trefoil Factor (TFF) locus cell-specific activities.

Authors:  Justine Quintin; Christine Le Péron; Gaëlle Palierne; Maud Bizot; Stéphanie Cunha; Aurélien A Sérandour; Stéphane Avner; Catherine Henry; Frédéric Percevault; Marc-Antoine Belaud-Rotureau; Sébastien Huet; Erwan Watrin; Jérôme Eeckhoute; Vincent Legagneux; Gilles Salbert; Raphaël Métivier
Journal:  Mol Cell Biol       Date:  2014-04-21       Impact factor: 4.272

Review 3.  Host Factors in Retroviral Integration and the Selection of Integration Target Sites.

Authors:  Robert Craigie; Frederic D Bushman
Journal:  Microbiol Spectr       Date:  2014-12

4.  Identifying growth hormone-regulated enhancers in the Igf1 locus.

Authors:  Damir Alzhanov; Aditi Mukherjee; Peter Rotwein
Journal:  Physiol Genomics       Date:  2015-09-01       Impact factor: 3.107

5.  Genome organization by Klf4 regulates transcription in pluripotent stem cells.

Authors:  David Huang; Zong Wei; Wange Lu
Journal:  Cell Cycle       Date:  2013-09-23       Impact factor: 4.534

Review 6.  Genetic compensation: A phenomenon in search of mechanisms.

Authors:  Mohamed A El-Brolosy; Didier Y R Stainier
Journal:  PLoS Genet       Date:  2017-07-13       Impact factor: 5.917

7.  Intronic variant of EGFR is associated with GBAS expression and survival outcome of early-stage non-small cell lung cancer.

Authors:  Mi Jeong Hong; Shin Yup Lee; Jin Eun Choi; Hyo-Gyoung Kang; Sook Kyung Do; Jang Hyuck Lee; Seung Soo Yoo; Eung Bae Lee; Yangki Seok; Sukki Cho; Sanghoon Jheon; Jaehee Lee; Seung Ick Cha; Chang Ho Kim; Jae Yong Park
Journal:  Thorac Cancer       Date:  2018-05-28       Impact factor: 3.500

8.  lncRNA 5430416N02Rik Promotes the Proliferation of Mouse Embryonic Stem Cells by Activating Mid1 Expression through 3D Chromatin Architecture.

Authors:  Tong Zhao; Mingyang Cai; Man Liu; Guangsong Su; Daniel An; Byoungsan Moon; Guochang Lyu; Yibo Si; Lingyi Chen; Wange Lu
Journal:  Stem Cell Reports       Date:  2020-03-10       Impact factor: 7.765

9.  Sub-kb Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells.

Authors:  Qi Wang; Qiu Sun; Daniel M Czajkowsky; Zhifeng Shao
Journal:  Nat Commun       Date:  2018-01-15       Impact factor: 14.919
  9 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.