Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families

The Rfam database is a collection of RNA families in which each family is represented by a multiple sequence alignment, a consensus secondary structure, and a covariance model. In this paper we introduce Rfam release 13.0, which switches to a new genome-centric approach that annotates a non-redundan...

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Detalles Bibliográficos
Autores principales: Kalvari, Ioanna, Argasinska, Joanna, Quinones-Olvera, Natalia, Nawrocki, Eric P, Rivas, Elena, Eddy, Sean R, Bateman, Alex, Finn, Robert D, Petrov, Anton I
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2018
Materias:
Database Issue
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753348/
https://www.ncbi.nlm.nih.gov/pubmed/29112718
http://dx.doi.org/10.1093/nar/gkx1038
Descripción
Sumario:The Rfam database is a collection of RNA families in which each family is represented by a multiple sequence alignment, a consensus secondary structure, and a covariance model. In this paper we introduce Rfam release 13.0, which switches to a new genome-centric approach that annotates a non-redundant set of reference genomes with RNA families. We describe new web interface features including faceted text search and R-scape secondary structure visualizations. We discuss a new literature curation workflow and a pipeline for building families based on RNAcentral. There are 236 new families in release 13.0, bringing the total number of families to 2687. The Rfam website is http://rfam.org.

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