REDIportal: millions of novel A-to-I RNA editing events from thousands of RNAseq experiments.
Base Sequence
/ genetics
Computational Biology
/ methods
Data Curation
/ methods
Data Mining
/ methods
Databases, Genetic
Gene Expression Profiling
/ methods
Gene Expression Regulation
Genomics
/ methods
Humans
Internet
Proteome
/ genetics
Proteomics
/ methods
RNA Editing
/ genetics
Transcriptome
/ genetics
Journal
Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011
Informations de publication
Date de publication:
08 01 2021
08 01 2021
Historique:
accepted:
05
10
2020
revised:
30
09
2020
received:
14
09
2020
pubmed:
27
10
2020
medline:
2
2
2021
entrez:
26
10
2020
Statut:
ppublish
Résumé
RNA editing is a relevant epitranscriptome phenomenon able to increase the transcriptome and proteome diversity of eukaryotic organisms. ADAR mediated RNA editing is widespread in humans in which millions of A-to-I changes modify thousands of primary transcripts. RNA editing has pivotal roles in the regulation of gene expression or modulation of the innate immune response or functioning of several neurotransmitter receptors. Massive transcriptome sequencing has fostered the research in this field. Nonetheless, different aspects of the RNA editing biology are still unknown and need to be elucidated. To support the study of A-to-I RNA editing we have updated our REDIportal catalogue raising its content to about 16 millions of events detected in 9642 human RNAseq samples from the GTEx project by using a dedicated pipeline based on the HPC version of the REDItools software. REDIportal now allows searches at sample level, provides overviews of RNA editing profiles per each RNAseq experiment, implements a Gene View module to look at individual events in their genic context and hosts the CLAIRE database. Starting from this novel version, REDIportal will start collecting non-human RNA editing changes for comparative genomics investigations. The database is freely available at http://srv00.recas.ba.infn.it/atlas/index.html.
Identifiants
pubmed: 33104797
pii: 5940507
doi: 10.1093/nar/gkaa916
pmc: PMC7778987
doi:
Substances chimiques
Proteome
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
D1012-D1019Informations de copyright
© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.
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