Estimating the power of sequence covariation for detecting conserved RNA structure.
Journal
Bioinformatics (Oxford, England)
ISSN: 1367-4811
Titre abrégé: Bioinformatics
Pays: England
ID NLM: 9808944
Informations de publication
Date de publication:
01 05 2020
01 05 2020
Historique:
received:
02
12
2019
revised:
22
01
2020
accepted:
29
01
2020
pubmed:
8
2
2020
medline:
30
10
2020
entrez:
8
2
2020
Statut:
ppublish
Résumé
Pairwise sequence covariations are a signal of conserved RNA secondary structure. We describe a method for distinguishing when lack of covariation signal can be taken as evidence against a conserved RNA structure, as opposed to when a sequence alignment merely has insufficient variation to detect covariations. We find that alignments for several long non-coding RNAs previously shown to lack covariation support do have adequate covariation detection power, providing additional evidence against their proposed conserved structures. The R-scape web server is at eddylab.org/R-scape, with a link to download the source code. Supplementary data are available at Bioinformatics online.
Identifiants
pubmed: 32031582
pii: 5729989
doi: 10.1093/bioinformatics/btaa080
pmc: PMC7214042
doi:
Substances chimiques
RNA, Long Noncoding
0
RNA
63231-63-0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
3072-3076Subventions
Organisme : Howard Hughes Medical Institute
Pays : United States
Informations de copyright
© The Author(s) 2020. Published by Oxford University Press.
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