Literature DB >> 27863237

The Ties That Bind: Mapping the Dynamic Enhancer-Promoter Interactome.

Cailyn H Spurrell1, Diane E Dickel1, Axel Visel2.   

Abstract

Coupling chromosome conformation capture to molecular enrichment for promoter-containing DNA fragments enables the systematic mapping of interactions between individual distal regulatory sequences and their target genes. In this Minireview, we describe recent progress in the application of this technique and related complementary approaches to gain insight into the lineage- and cell-type-specific dynamics of interactions between regulators and gene promoters.
Copyright © 2016 Elsevier Inc. All rights reserved.

Entities:  

Mesh：

Year:  2016        PMID： 27863237      PMCID： PMC5131802          DOI： 10.1016/j.cell.2016.10.054

Source DB:  PubMed          Journal:  Cell        ISSN： 0092-8674            Impact factor:   41.582


  20 in total

1.  Analysis of Normal Human Mammary Epigenomes Reveals Cell-Specific Active Enhancer States and Associated Transcription Factor Networks.

Authors:  Davide Pellacani; Misha Bilenky; Nagarajan Kannan; Alireza Heravi-Moussavi; David J H F Knapp; Sitanshu Gakkhar; Michelle Moksa; Annaick Carles; Richard Moore; Andrew J Mungall; Marco A Marra; Steven J M Jones; Samuel Aparicio; Martin Hirst; Connie J Eaves
Journal:  Cell Rep       Date:  2016-11-15       Impact factor: 9.423

2.  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

3.  Discovery and characterization of chromatin states for systematic annotation of the human genome.

Authors:  Jason Ernst; Manolis Kellis
Journal:  Nat Biotechnol       Date:  2010-07-25       Impact factor: 54.908

4.  Topological domains in mammalian genomes identified by analysis of chromatin interactions.

Authors:  Jesse R Dixon; Siddarth Selvaraj; Feng Yue; Audrey Kim; Yan Li; Yin Shen; Ming Hu; Jun S Liu; Bing Ren
Journal:  Nature       Date:  2012-04-11       Impact factor: 49.962

5.  The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements.

Authors:  Stefan Schoenfelder; Mayra Furlan-Magaril; Borbala Mifsud; Filipe Tavares-Cadete; Robert Sugar; Biola-Maria Javierre; Takashi Nagano; Yulia Katsman; Moorthy Sakthidevi; Steven W Wingett; Emilia Dimitrova; Andrew Dimond; Lucas B Edelman; Sarah Elderkin; Kristina Tabbada; Elodie Darbo; Simon Andrews; Bram Herman; Andy Higgs; Emily LeProust; Cameron S Osborne; Jennifer A Mitchell; Nicholas M Luscombe; Peter Fraser
Journal:  Genome Res       Date:  2015-03-09       Impact factor: 9.043

6.  Epigenetic and transcriptional determinants of the human breast.

Authors:  Philippe Gascard; Misha Bilenky; Mahvash Sigaroudinia; Jianxin Zhao; Luolan Li; Annaick Carles; Allen Delaney; Angela Tam; Baljit Kamoh; Stephanie Cho; Malachi Griffith; Andy Chu; Gordon Robertson; Dorothy Cheung; Irene Li; Alireza Heravi-Moussavi; Michelle Moksa; Matthew Mingay; Angela Hussainkhel; Brad Davis; Raman P Nagarajan; Chibo Hong; Lorigail Echipare; Henriette O'Geen; Matthew J Hangauer; Jeffrey B Cheng; Dana Neel; Donglei Hu; Michael T McManus; Richard Moore; Andrew Mungall; Yussanne Ma; Patrick Plettner; Elad Ziv; Ting Wang; Peggy J Farnham; Steven J M Jones; Marco A Marra; Thea D Tlsty; Joseph F Costello; Martin Hirst
Journal:  Nat Commun       Date:  2015-02-18       Impact factor: 14.919

7.  Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters.

Authors:  Biola M Javierre; Oliver S Burren; Steven P Wilder; Roman Kreuzhuber; Steven M Hill; Sven Sewitz; Jonathan Cairns; Steven W Wingett; Csilla Várnai; Michiel J Thiecke; Frances Burden; Samantha Farrow; Antony J Cutler; Karola Rehnström; Kate Downes; Luigi Grassi; Myrto Kostadima; Paula Freire-Pritchett; Fan Wang; Hendrik G Stunnenberg; John A Todd; Daniel R Zerbino; Oliver Stegle; Willem H Ouwehand; Mattia Frontini; Chris Wallace; Mikhail Spivakov; Peter Fraser
Journal:  Cell       Date:  2016-11-17       Impact factor: 41.582

8.  Perspectives of international human epigenome consortium.

Authors:  Jae-Bum Bae
Journal:  Genomics Inform       Date:  2013-03-31

9.  Capture Hi-C reveals novel candidate genes and complex long-range interactions with related autoimmune risk loci.

Authors:  Paul Martin; Amanda McGovern; Gisela Orozco; Kate Duffus; Annie Yarwood; Stefan Schoenfelder; Nicholas J Cooper; Anne Barton; Chris Wallace; Peter Fraser; Jane Worthington; Steve Eyre
Journal:  Nat Commun       Date:  2015-11-30       Impact factor: 14.919

10.  Recessive mutations in a distal PTF1A enhancer cause isolated pancreatic agenesis.

Authors:  Michael N Weedon; Ines Cebola; Ann-Marie Patch; Sian Ellard; Jorge Ferrer; Andrew T Hattersley; Sarah E Flanagan; Elisa De Franco; Richard Caswell; Santiago A Rodríguez-Seguí; Charles Shaw-Smith; Candy H-H Cho; Hana Lango Allen; Jayne Al Houghton; Christian L Roth; Rongrong Chen; Khalid Hussain; Phil Marsh; Ludovic Vallier; Anna Murray
Journal:  Nat Genet       Date:  2013-11-10       Impact factor: 38.330
View more
  18 in total

Review 1.  From Reductionism to Holism: Toward a More Complete View of Development Through Genome Engineering.

Authors:  Rebecca K Delker; Richard S Mann
Journal:  Adv Exp Med Biol       Date:  2017       Impact factor: 2.622

Review 2.  Molecular mechanisms of suppressor of fused in regulating the hedgehog signalling pathway.

Authors:  Dengliang Huang; Yiting Wang; Jiabin Tang; Shiwen Luo
Journal:  Oncol Lett       Date:  2018-03-01       Impact factor: 2.967

3.  SRC-3 Coactivator Governs Dynamic Estrogen-Induced Chromatin Looping Interactions during Transcription.

Authors:  Anil K Panigrahi; Charles E Foulds; Rainer B Lanz; Ross A Hamilton; Ping Yi; David M Lonard; Ming-Jer Tsai; Sophia Y Tsai; Bert W O'Malley
Journal:  Mol Cell       Date:  2018-05-17       Impact factor: 17.970

4.  Connected Gene Communities Underlie Transcriptional Changes in Cornelia de Lange Syndrome.

Authors:  Imène Boudaoud; Éric Fournier; Audrey Baguette; Maxime Vallée; Fabien C Lamaze; Arnaud Droit; Steve Bilodeau
Journal:  Genetics       Date:  2017-07-05       Impact factor: 4.562

Review 5.  The role of transcription in shaping the spatial organization of the genome.

Authors:  Bas van Steensel; Eileen E M Furlong
Journal:  Nat Rev Mol Cell Biol       Date:  2019-06       Impact factor: 94.444

Review 6.  Germ cells: ENCODE's forgotten cell type†.

Authors:  John R McCarrey; Keren Cheng
Journal:  Biol Reprod       Date:  2021-09-14       Impact factor: 4.161

7.  High-Resolution Mapping of Chromatin Conformation in Cardiac Myocytes Reveals Structural Remodeling of the Epigenome in Heart Failure.

Authors:  Manuel Rosa-Garrido; Douglas J Chapski; Anthony D Schmitt; Todd H Kimball; Elaheh Karbassi; Emma Monte; Enrique Balderas; Matteo Pellegrini; Tsai-Ting Shih; Elizabeth Soehalim; David Liem; Peipei Ping; Niels J Galjart; Shuxun Ren; Yibin Wang; Bing Ren; Thomas M Vondriska
Journal:  Circulation       Date:  2017-08-11       Impact factor: 29.690

8.  Multiple functional variants in the IL1RL1 region are pretransplant markers for risk of GVHD and infection deaths.

Authors:  Ezgi Karaesmen; Theresa Hahn; Alexander James Dile; Abbas A Rizvi; Junke Wang; Tao Wang; Michael D Haagenson; Leah Preus; Qianqian Zhu; Qian Liu; Li Yan; Song Liu; Christopher A Haiman; Daniel Stram; Loreall Pooler; Xin Sheng; David Van Den Berg; Guy Brock; Amy Webb; Philip L McCarthy; Marcelo C Pasquini; Stephen R Spellman; Stephanie J Lee; Sophie Paczesny; Lara E Sucheston-Campbell
Journal:  Blood Adv       Date:  2019-08-27

9.  Genome-Wide Association Analyses Identify Variants in IRF4 Associated With Acute Myeloid Leukemia and Myelodysplastic Syndrome Susceptibility.

Authors:  Junke Wang; Alyssa I Clay-Gilmour; Ezgi Karaesmen; Abbas Rizvi; Qianqian Zhu; Li Yan; Leah Preus; Song Liu; Yiwen Wang; Elizabeth Griffiths; Daniel O Stram; Loreall Pooler; Xin Sheng; Christopher Haiman; David Van Den Berg; Amy Webb; Guy Brock; Stephen Spellman; Marcelo Pasquini; Philip McCarthy; James Allan; Friedrich Stölzel; Kenan Onel; Theresa Hahn; Lara E Sucheston-Campbell
Journal:  Front Genet       Date:  2021-06-17       Impact factor: 4.599

10.  RUNX2 expression in thyroid and breast cancer requires the cooperation of three non-redundant enhancers under the control of BRD4 and c-JUN.

Authors:  Valentina Sancisi; Gloria Manzotti; Mila Gugnoni; Teresa Rossi; Greta Gandolfi; Giulia Gobbi; Federica Torricelli; Francesca Catellani; Italo Faria do Valle; Daniel Remondini; Gastone Castellani; Moira Ragazzi; Simonetta Piana; Alessia Ciarrocchi
Journal:  Nucleic Acids Res       Date:  2017-11-02       Impact factor: 16.971
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.