Literature DB >> 25303371

The many faces of long noncoding RNAs.

Alessandro Gardini1, Ramin Shiekhattar.   

Abstract

Over the past few years, the field of noncoding RNAs has grown from a niche for geneticists into a prominent domain of mainstream biology. Advances in genomic technologies have provided a more comprehensive view of the mammalian genome, improving our knowledge of regions of the genome devoid of protein-coding potential. A large body of evidence supports the proposal that noncoding RNAs account for a large proportion of the transcriptional output of any given cell and tissue type. This review will delve into the biogenesis and function of long noncoding RNAs. We will discuss our current understanding of these molecules as major chromatin players, and explore future directions in the field.
© 2014 FEBS.

Entities:  

Keywords:  eRNAs; enhancer; lncRNAs; noncoding; transcription

Mesh:

Substances:

Year:  2014        PMID: 25303371      PMCID: PMC4520312          DOI: 10.1111/febs.13101

Source DB:  PubMed          Journal:  FEBS J        ISSN: 1742-464X            Impact factor:   5.542


  77 in total

Review 1.  Beyond GWASs: illuminating the dark road from association to function.

Authors:  Stacey L Edwards; Jonathan Beesley; Juliet D French; Alison M Dunning
Journal:  Am J Hum Genet       Date:  2013-11-07       Impact factor: 11.025

2.  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

3.  Jarid2 Is Implicated in the Initial Xist-Induced Targeting of PRC2 to the Inactive X Chromosome.

Authors:  Simão Teixeira da Rocha; Valentina Boeva; Martin Escamilla-Del-Arenal; Katia Ancelin; Camille Granier; Neuza Reis Matias; Serena Sanulli; Jen Chow; Edda Schulz; Christel Picard; Syuzo Kaneko; Kristian Helin; Danny Reinberg; A Francis Stewart; Anton Wutz; Raphaël Margueron; Edith Heard
Journal:  Mol Cell       Date:  2014-01-23       Impact factor: 17.970

4.  Remodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription.

Authors:  Minna U Kaikkonen; Nathanael J Spann; Sven Heinz; Casey E Romanoski; Karmel A Allison; Joshua D Stender; Hyun B Chun; David F Tough; Rab K Prinjha; Christopher Benner; Christopher K Glass
Journal:  Mol Cell       Date:  2013-08-08       Impact factor: 17.970

5.  An atlas of active enhancers across human cell types and tissues.

Authors:  Robin Andersson; Claudia Gebhard; Michael Rehli; Albin Sandelin; Irene Miguel-Escalada; Ilka Hoof; Jette Bornholdt; Mette Boyd; Yun Chen; Xiaobei Zhao; Christian Schmidl; Takahiro Suzuki; Evgenia Ntini; Erik Arner; Eivind Valen; Kang Li; Lucia Schwarzfischer; Dagmar Glatz; Johanna Raithel; Berit Lilje; Nicolas Rapin; Frederik Otzen Bagger; Mette Jørgensen; Peter Refsing Andersen; Nicolas Bertin; Owen Rackham; A Maxwell Burroughs; J Kenneth Baillie; Yuri Ishizu; Yuri Shimizu; Erina Furuhata; Shiori Maeda; Yutaka Negishi; Christopher J Mungall; Terrence F Meehan; Timo Lassmann; Masayoshi Itoh; Hideya Kawaji; Naoto Kondo; Jun Kawai; Andreas Lennartsson; Carsten O Daub; Peter Heutink; David A Hume; Torben Heick Jensen; Harukazu Suzuki; Yoshihide Hayashizaki; Ferenc Müller; Alistair R R Forrest; Piero Carninci
Journal:  Nature       Date:  2014-03-27       Impact factor: 49.962

6.  Multiple knockout mouse models reveal lincRNAs are required for life and brain development.

Authors:  Martin Sauvageau; Loyal A Goff; Simona Lodato; Boyan Bonev; Abigail F Groff; Chiara Gerhardinger; Diana B Sanchez-Gomez; Ezgi Hacisuleyman; Eric Li; Matthew Spence; Stephen C Liapis; William Mallard; Michael Morse; Mavis R Swerdel; Michael F D'Ecclessis; Jennifer C Moore; Venus Lai; Guochun Gong; George D Yancopoulos; David Frendewey; Manolis Kellis; Ronald P Hart; David M Valenzuela; Paola Arlotta; John L Rinn
Journal:  Elife       Date:  2013-12-31       Impact factor: 8.140

7.  Interactions between JARID2 and noncoding RNAs regulate PRC2 recruitment to chromatin.

Authors:  Syuzo Kaneko; Roberto Bonasio; Ricardo Saldaña-Meyer; Takahaki Yoshida; Jinsook Son; Koichiro Nishino; Akihiro Umezawa; Danny Reinberg
Journal:  Mol Cell       Date:  2013-12-26       Impact factor: 17.970

8.  Enhancer transcripts mark active estrogen receptor binding sites.

Authors:  Nasun Hah; Shino Murakami; Anusha Nagari; Charles G Danko; W Lee Kraus
Journal:  Genome Res       Date:  2013-05-01       Impact factor: 9.043

9.  Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals.

Authors:  Stefan Washietl; Manolis Kellis; Manuel Garber
Journal:  Genome Res       Date:  2014-01-15       Impact factor: 9.043

10.  Long non-coding RNA identification over mouse brain development by integrative modeling of chromatin and genomic features.

Authors:  Jie Lv; Hongbo Liu; Zhijun Huang; Jianzhong Su; Hongjuan He; Youcheng Xiu; Yan Zhang; Qiong Wu
Journal:  Nucleic Acids Res       Date:  2013-09-13       Impact factor: 16.971

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  24 in total

Review 1.  Differential expression and emerging functions of non-coding RNAs in cold adaptation.

Authors:  Jacques J Frigault; Mathieu D Morin; Pier Jr Morin
Journal:  J Comp Physiol B       Date:  2016-11-19       Impact factor: 2.200

2.  The Tumor Suppressor ARID1A Controls Global Transcription via Pausing of RNA Polymerase II.

Authors:  Marco Trizzino; Elisa Barbieri; Ana Petracovici; Shuai Wu; Sarah A Welsh; Tori A Owens; Silvia Licciulli; Rugang Zhang; Alessandro Gardini
Journal:  Cell Rep       Date:  2018-06-26       Impact factor: 9.423

3.  Spatial Organization of Epigenomes.

Authors:  Jonathan Christopher Dubé; Xue Qing David Wang; Josée Dostie
Journal:  Curr Mol Biol Rep       Date:  2016-02-04

4.  Expression dynamics, relationships, and transcriptional regulations of diverse transcripts in mouse spermatogenic cells.

Authors:  Xiwen Lin; Miao Han; Lu Cheng; Jian Chen; Zhuqiang Zhang; Ting Shen; Min Wang; Bo Wen; Ting Ni; Chunsheng Han
Journal:  RNA Biol       Date:  2016-08-25       Impact factor: 4.652

5.  Long non-coding RNA FOXP4-AS1 is an unfavourable prognostic factor and regulates proliferation and apoptosis in colorectal cancer.

Authors:  Juan Li; Yifan Lian; Changsheng Yan; Zeling Cai; Jie Ding; Zhonghua Ma; Peng Peng; Keming Wang
Journal:  Cell Prolif       Date:  2016-10-27       Impact factor: 6.831

Review 6.  Long Non-coding RNA ZFPM2-AS1: A Novel Biomarker in the Pathogenesis of Human Cancers.

Authors:  Gabriel B K Sasa; Cheng Xuan; Guoliang Lyu; Xianfeng Ding; Fang Meiyu
Journal:  Mol Biotechnol       Date:  2022-01-31       Impact factor: 2.695

7.  Analysis of circulating non-coding RNAs in a non-invasive and cost-effective manner.

Authors:  Yu-Min Wang; Michael Patrick Trinh; Yongzan Zheng; Kaizhu Guo; Luis A Jimenez; Wenwan Zhong
Journal:  Trends Analyt Chem       Date:  2019-07-05       Impact factor: 12.296

8.  Long non-coding RNA TUG1 promotes progression of oral squamous cell carcinoma through upregulating FMNL2 by sponging miR-219.

Authors:  Guangqi Yan; Xue Wang; Mingliang Yang; Li Lu; Qing Zhou
Journal:  Am J Cancer Res       Date:  2017-09-01       Impact factor: 6.166

9.  Long noncoding RNAs in B-cell development and activation.

Authors:  Tiago F Brazão; Jethro S Johnson; Jennifer Müller; Andreas Heger; Chris P Ponting; Victor L J Tybulewicz
Journal:  Blood       Date:  2016-07-05       Impact factor: 22.113

10.  RNA-Mediated Feedback Control of Transcriptional Condensates.

Authors:  Jonathan E Henninger; Ozgur Oksuz; Krishna Shrinivas; Ido Sagi; Gary LeRoy; Ming M Zheng; J Owen Andrews; Alicia V Zamudio; Charalampos Lazaris; Nancy M Hannett; Tong Ihn Lee; Phillip A Sharp; Ibrahim I Cissé; Arup K Chakraborty; Richard A Young
Journal:  Cell       Date:  2020-12-16       Impact factor: 41.582

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