The lncRNA Toolkit: Databases and In Silico Tools for lncRNA Analysis

Long non-coding RNAs (lncRNAs) are a rapidly expanding field of research, with many new transcripts identified each year. However, only a small subset of lncRNAs has been characterized functionally thus far. To aid investigating the mechanisms of action by which new lncRNAs act, bioinformatic tools...

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Bibliographic Details
Published in:Non-coding RNA Vol. 6; no. 4; p. 49
Main Authors: Pinkney, Holly R., Wright, Brandon M., Diermeier, Sarah D.
Format: Journal Article
Language:English
Published: Switzerland MDPI AG 16.12.2020
MDPI
Subjects:
bioinformatic prediction software
computational analysis
Computer applications
Deoxyribonucleic acid
Disease
DNA
DNA methylation
Gene expression
Gene loci
Genomes
Interfaces
Localization
long non-coding RNAs
MicroRNAs
Non-coding RNA
non-coding RNAs
Review
RNA interactions
RNA polymerase
databases
non-coding RNAs
bioinformatic prediction software
computational analysis
RNA function
long non-coding RNAs
RNA structure
RNA interactions
coding potential
ISSN:2311-553X, 2311-553X
Online Access:Get full text
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Summary:Long non-coding RNAs (lncRNAs) are a rapidly expanding field of research, with many new transcripts identified each year. However, only a small subset of lncRNAs has been characterized functionally thus far. To aid investigating the mechanisms of action by which new lncRNAs act, bioinformatic tools and databases are invaluable. Here, we review a selection of computational tools and databases for the in silico analysis of lncRNAs, including tissue-specific expression, protein coding potential, subcellular localization, structural conformation, and interaction partners. The assembled lncRNA toolkit is aimed primarily at experimental researchers as a useful starting point to guide wet-lab experiments, mainly containing multi-functional, user-friendly interfaces. With more and more new lncRNA analysis tools available, it will be essential to provide continuous updates and maintain the availability of key software in the future.
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These authors contributed equally to this work.
ISSN:2311-553X
2311-553X
DOI:10.3390/ncrna6040049