Literature DB >> 29106456

CircView: a visualization and exploration tool for circular RNAs.

Jing Feng1, Yu Xiang2, Siyu Xia3, Huan Liu4, Jun Wang3, Fatma Muge Ozguc2, Lijun Lei3, Ruoshan Kong1, Lixia Diao5, Chunjiang He6, Leng Han2.   

Abstract

Circular RNAs (circRNAs) are novel rising stars of noncoding RNAs, which are highly abundant and evolutionarily conserved across species. Number of publications related to circRNAs increased sharply in recent years, representing emerging focuses in the field. Therefore, tools, pipelines and databases have been developed to identify and store circRNAs. However, there is no existing tool to visualize and explore circRNAs. Therefore, we introduce CircView, a user-friendly visualization tool for circRNAs detected from existing tools. CircView enables users to visualize circRNAs and to quantify number of samples with detected circRNAs. CircView allows users to explore circRNAs detected by unique or multiple tools. Furthermore, CircView allows users to view the regulatory elements, such as microRNA response elements and RNA-binding protein binding sites. CircView is a unique tool to visualize and explore circRNAs, which helps users to better understand potential functions of circRNAs and design the functional experiments.

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Year:  2018        PMID: 29106456     DOI: 10.1093/bib/bbx070

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN: 1467-5463            Impact factor:   11.622


  14 in total

1.  Hsa_circ_0033155: A potential novel biomarker for non-small cell lung cancer.

Authors:  Xiaohua Gu; Gang Wang; Hui Shen; Xiaoyun Fei
Journal:  Exp Ther Med       Date:  2018-08-02       Impact factor: 2.447

2.  Computational Analysis of circRNA Expression Data.

Authors:  Giulio Ferrero; Nicola Licheri; Michele De Bortoli; Raffaele A Calogero; Marco Beccuti; Francesca Cordero
Journal:  Methods Mol Biol       Date:  2021

Review 3.  Circular RNAs in cardiovascular diseases.

Authors:  Xiaohan Mei; Shi-You Chen
Journal:  Pharmacol Ther       Date:  2021-09-27       Impact factor: 12.310

Review 4.  Methods for analysis of circular RNAs.

Authors:  Poonam R Pandey; Rachel Munk; Gautam Kundu; Supriyo De; Kotb Abdelmohsen; Myriam Gorospe
Journal:  Wiley Interdiscip Rev RNA       Date:  2019-09-05       Impact factor: 9.349

Review 5.  Current Research on Non-Coding Ribonucleic Acid (RNA).

Authors:  Jing Wang; David C Samuels; Shilin Zhao; Yu Xiang; Ying-Yong Zhao; Yan Guo
Journal:  Genes (Basel)       Date:  2017-12-05       Impact factor: 4.096

6.  Transcriptomic signature associated with carcinogenesis and aggressiveness of papillary thyroid carcinoma.

Authors:  Huajing Teng; Fengbiao Mao; Jialong Liang; Meiying Xue; Wenqing Wei; Xianfeng Li; Kun Zhang; Dongdong Feng; Baoguo Liu; Zhongsheng Sun
Journal:  Theranostics       Date:  2018-07-30       Impact factor: 11.556

7.  CircFunBase: a database for functional circular RNAs.

Authors:  Xianwen Meng; Dahui Hu; Peijing Zhang; Qi Chen; Ming Chen
Journal:  Database (Oxford)       Date:  2019-01-01       Impact factor: 3.451

Review 8.  Function of Circular RNAs in Fish and Their Potential Application as Biomarkers.

Authors:  Golam Rbbani; Artem Nedoluzhko; Jorge Galindo-Villegas; Jorge M O Fernandes
Journal:  Int J Mol Sci       Date:  2021-07-01       Impact factor: 5.923

9.  CircParser: a novel streamlined pipeline for circular RNA structure and host gene prediction in non-model organisms.

Authors:  Artem Nedoluzhko; Fedor Sharko; Md Golam Rbbani; Anton Teslyuk; Ioannis Konstantinidis; Jorge M O Fernandes
Journal:  PeerJ       Date:  2020-03-16       Impact factor: 2.984

10.  Docker4Circ: A Framework for the Reproducible Characterization of circRNAs from RNA-Seq Data.

Authors:  Giulio Ferrero; Nicola Licheri; Lucia Coscujuela Tarrero; Carlo De Intinis; Valentina Miano; Raffaele Adolfo Calogero; Francesca Cordero; Michele De Bortoli; Marco Beccuti
Journal:  Int J Mol Sci       Date:  2019-12-31       Impact factor: 5.923

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