학술논문
RNAcentral 2021: secondary structure integration, improved sequence search and new member databases
Document Type
article
Author
Sweeney, Blake A; Petrov, Anton I; Ribas, Carlos E; Finn, Robert D; Bateman, Alex; Szymanski, Maciej; Karlowski, Wojciech M; Seemann, Stefan E; Gorodkin, Jan; Cannone, Jamie J; Gutell, Robin R; Kay, Simon; Marygold, Steven; dos Santos, Gil; Frankish, Adam; Mudge, Jonathan M; Barshir, Ruth; Fishilevich, Simon; Chan, Patricia P; Lowe, Todd M; Seal, Ruth; Bruford, Elspeth; Panni, Simona; Porras, Pablo; Karagkouni, Dimitra; Hatzigeorgiou, Artemis G; Ma, Lina; Zhang, Zhang; Volders, Pieter-Jan; Mestdagh, Pieter; Griffiths-Jones, Sam; Fromm, Bastian; Peterson, Kevin J; Kalvari, Ioanna; Nawrocki, Eric P; Petrov, Anton S; Weng, Shuai; Bouchard-Bourelle, Philia; Scott, Michelle; Lui, Lauren M; Hoksza, David; Lovering, Ruth C; Kramarz, Barbara; Mani, Prita; Ramachandran, Sridhar; Weinberg, Zasha
Source
Nucleic Acids Research. 49(D1)
Subject
Language
Abstract
RNAcentral is a comprehensive database of non-coding RNA (ncRNA) sequences that provides a single access point to 44 RNA resources and >18 million ncRNA sequences from a wide range of organisms and RNA types. RNAcentral now also includes secondary (2D) structure information for >13 million sequences, making RNAcentral the world's largest RNA 2D structure database. The 2D diagrams are displayed using R2DT, a new 2D structure visualization method that uses consistent, reproducible and recognizable layouts for related RNAs. The sequence similarity search has been updated with a faster interface featuring facets for filtering search results by RNA type, organism, source database or any keyword. This sequence search tool is available as a reusable web component, and has been integrated into several RNAcentral member databases, including Rfam, miRBase and snoDB. To allow for a more fine-grained assignment of RNA types and subtypes, all RNAcentral sequences have been annotated with Sequence Ontology terms. The RNAcentral database continues to grow and provide a central data resource for the RNA community. RNAcentral is freely available at https://rnacentral.org.