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

Ioanna Kalvari(European Bioinformatics Institute), Joanna Argasinska(European Bioinformatics Institute), Natalia Quinones‐Olvera(Harvard University), Eric P. Nawrocki(National Institutes of Health), Elena Rivas(Harvard University), Sean R. Eddy(Howard Hughes Medical Institute), Alex Bateman(European Bioinformatics Institute), ROBERT FINN(European Bioinformatics Institute), Anton I. Petrov(European Bioinformatics Institute)
Nucleic Acids Research
October 19, 2017
10.1093/nar/gkx1038
Cited by 1,138Open Access
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Abstract

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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