Analysis of Circular RNAs Using the Web Tool CircInteractome

Circular RNAs (circRNAs) are generated through nonlinear back splicing, during which the 5' and 3' ends are covalently joined. Consequently, the lack of free ends makes them very stable compared to their counterpart linear RNAs. By selectively interacting with microRNAs and RNA-binding pro...

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Bibliographic Details
Published in:Methods in molecular biology (Clifton, N.J.) Vol. 1724; p. 43
Main Authors: Panda, Amaresh C, Dudekula, Dawood B, Abdelmohsen, Kotb, Gorospe, Myriam
Format: Journal Article
Language:English
Published: United States 01.01.2018
Subjects:
Binding Sites
Computational Biology - methods
Gene Expression Regulation
Humans
MicroRNAs - genetics
RNA - genetics
RNA Splicing
RNA, Circular
RNA-Binding Proteins - genetics
RNA-Binding Proteins - metabolism
Sequence Analysis, RNA - methods
Web Browser
RNA-binding proteins
Gene-specific circRNAs
Divergent primer design
CLIP-seq
Transcriptome
Cell- and tissue-specific circRNAs
ISSN:1940-6029, 1940-6029
Online Access:Get more information
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Summary:Circular RNAs (circRNAs) are generated through nonlinear back splicing, during which the 5' and 3' ends are covalently joined. Consequently, the lack of free ends makes them very stable compared to their counterpart linear RNAs. By selectively interacting with microRNAs and RNA-binding proteins (RBPs), circRNAs have been shown to influence gene expression programs. We designed a web tool, CircInteractome, in order to (1) explore potential interactions of circRNAs with RBPs, (2) design specific divergent primers to detect circRNAs, (3) study tissue- and cell-specific circRNAs, (4) identify gene-specific circRNAs, (5) explore potential miRNAs interacting with circRNAs, and (6) design specific siRNAs to silence circRNAs. Here, we review the CircInteractome tool and explain recent updates to the site. The database is freely accessible at http://circinteractome.nia.nih.gov .
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ISSN:1940-6029
1940-6029
DOI:10.1007/978-1-4939-7562-4_4