Literature DB >> 26363021

LncReg: a reference resource for lncRNA-associated regulatory networks.

Zhong Zhou1, Yi Shen1, Muhammad Riaz Khan2, Ao Li3.   

Abstract

Long non-coding RNAs (lncRNAs) are critical in the regulation of various biological processes. In recent years, plethora of lncRNAs have been identified in mammalian genomes through different approaches, and the researchers are constantly reporting the regulatory roles of these lncRNAs, which leads to complexity of literature about particular lncRNAs. Therefore, for the convenience of the researchers, we collected regulatory relationships of the lncRNAs and built a database called 'LncReg'. This database is developed by collecting 1081 validated lncRNA-associated regulatory entries, including 258 non-redundant lncRNAs and 571 non-redundant genes. With regulatory relationships information, LncReg can provide overall perspectives of regulatory networks of lncRNAs and comprehensive data for bioinformatics research, which is useful for understanding the functional roles of lncRNAs. Database URL: http://bioinformatics.ustc.edu.cn/lncreg/.
© The Author(s) 2015. Published by Oxford University Press.

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Year:  2015        PMID: 26363021      PMCID: PMC4565966          DOI: 10.1093/database/bav083

Source DB:  PubMed          Journal:  Database (Oxford)        ISSN: 1758-0463            Impact factor:   3.451


  39 in total

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Journal:  Science       Date:  2010-07-08       Impact factor: 47.728

2.  The melanoma-upregulated long noncoding RNA SPRY4-IT1 modulates apoptosis and invasion.

Authors:  Divya Khaitan; Marcel E Dinger; Joseph Mazar; Joanna Crawford; Martin A Smith; John S Mattick; Ranjan J Perera
Journal:  Cancer Res       Date:  2011-05-10       Impact factor: 12.701

3.  Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals.

Authors:  Mitchell Guttman; Ido Amit; Manuel Garber; Courtney French; Michael F Lin; David Feldser; Maite Huarte; Or Zuk; Bryce W Carey; John P Cassady; Moran N Cabili; Rudolf Jaenisch; Tarjei S Mikkelsen; Tyler Jacks; Nir Hacohen; Bradley E Bernstein; Manolis Kellis; Aviv Regev; John L Rinn; Eric S Lander
Journal:  Nature       Date:  2009-02-01       Impact factor: 49.962

4.  Circular RNAs are a large class of animal RNAs with regulatory potency.

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Journal:  Nature       Date:  2013-02-27       Impact factor: 49.962

5.  LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression.

Authors:  Qinghua Jiang; Jixuan Wang; Xiaoliang Wu; Rui Ma; Tianjiao Zhang; Shuilin Jin; Zhijie Han; Renjie Tan; Jiajie Peng; Guiyou Liu; Yu Li; Yadong Wang
Journal:  Nucleic Acids Res       Date:  2014-11-15       Impact factor: 19.160

6.  ViRBase: a resource for virus-host ncRNA-associated interactions.

Authors:  Yanhui Li; Changliang Wang; Zhengqiang Miao; Xiaoman Bi; Deng Wu; Nana Jin; Liqiang Wang; Hao Wu; Kun Qian; Chunhua Li; Ting Zhang; Chunrui Zhang; Ying Yi; Hongyan Lai; Yongfei Hu; Lixin Cheng; Kwong-Sak Leung; Xiaobo Li; Fengmin Zhang; Kongning Li; Xia Li; Dong Wang
Journal:  Nucleic Acids Res       Date:  2014-10-01       Impact factor: 16.971

7.  Pint lincRNA connects the p53 pathway with epigenetic silencing by the Polycomb repressive complex 2.

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Authors:  Yuan Gao; Fuju Wu; Jichun Zhou; Lei Yan; Michael J Jurczak; Hui-Young Lee; Lihua Yang; Martin Mueller; Xiao-Bo Zhou; Luisa Dandolo; Julia Szendroedi; Michael Roden; Clare Flannery; Hugh Taylor; Gordon G Carmichael; Gerald I Shulman; Yingqun Huang
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9.  starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data.

Authors:  Jun-Hao Li; Shun Liu; Hui Zhou; Liang-Hu Qu; Jian-Hua Yang
Journal:  Nucleic Acids Res       Date:  2013-12-01       Impact factor: 16.971

Review 10.  Regulation of metabolism by long, non-coding RNAs.

Authors:  Jan-Wilhelm Kornfeld; Jens C Brüning
Journal:  Front Genet       Date:  2014-03-25       Impact factor: 4.599

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  21 in total

1.  ncRPheno: a comprehensive database platform for identification and validation of disease related noncoding RNAs.

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Journal:  RNA Biol       Date:  2020-03-26       Impact factor: 4.652

Review 2.  Long Non-Coding RNAs: A Novel Paradigm for Toxicology.

Authors:  Joseph L Dempsey; Julia Yue Cui
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Review 3.  Blood-derived lncRNAs as biomarkers for cancer diagnosis: the Good, the Bad and the Beauty.

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Journal:  NPJ Precis Oncol       Date:  2022-06-21

4.  IRNdb: the database of immunologically relevant non-coding RNAs.

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5.  Lnc2Meth: a manually curated database of regulatory relationships between long non-coding RNAs and DNA methylation associated with human disease.

Authors:  Hui Zhi; Xin Li; Peng Wang; Yue Gao; Baoqing Gao; Dianshuang Zhou; Yan Zhang; Maoni Guo; Ming Yue; Weitao Shen; Shangwei Ning; Lianhong Jin; Xia Li
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Review 6.  Interaction and cross-talk between non-coding RNAs.

Authors:  Soichiro Yamamura; Mitsuho Imai-Sumida; Yuichiro Tanaka; Rajvir Dahiya
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Review 7.  Long non-coding RNA Databases in Cardiovascular Research.

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Journal:  Genomics Proteomics Bioinformatics       Date:  2016-04-02       Impact factor: 7.691

8.  DIANA-LncBase v2: indexing microRNA targets on non-coding transcripts.

Authors:  Maria D Paraskevopoulou; Ioannis S Vlachos; Dimitra Karagkouni; Georgios Georgakilas; Ilias Kanellos; Thanasis Vergoulis; Konstantinos Zagganas; Panayiotis Tsanakas; Evangelos Floros; Theodore Dalamagas; Artemis G Hatzigeorgiou
Journal:  Nucleic Acids Res       Date:  2015-11-26       Impact factor: 16.971

9.  Trends of long noncoding RNA research from 2007 to 2016: a bibliometric analysis.

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Journal:  Oncotarget       Date:  2017-09-12

Review 10.  When Long Noncoding RNAs Meet Genome Editing in Pluripotent Stem Cells.

Authors:  Fuquan Chen; Jiaojiao Ji; Jian Shen; Xinyi Lu
Journal:  Stem Cells Int       Date:  2017-11-23       Impact factor: 5.443

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