RNAvista: a webserver to assess RNA secondary structures with non-canonical base pairs

MOTIVATION: In the study of 3D RNA structure, information about non-canonical interactions between nucleobases is increasingly important. Specialized databases support investigation of this issue based on experimental data, and several programs can annotate non-canonical base pairs in the RNA 3D str...

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Detalles Bibliográficos
Autores principales: Antczak, Maciej, Zablocki, Marcin, Zok, Tomasz, Rybarczyk, Agnieszka, Blazewicz, Jacek, Szachniuk, Marta
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6298044/
https://www.ncbi.nlm.nih.gov/pubmed/29985979
http://dx.doi.org/10.1093/bioinformatics/bty609
Descripción
Sumario:MOTIVATION: In the study of 3D RNA structure, information about non-canonical interactions between nucleobases is increasingly important. Specialized databases support investigation of this issue based on experimental data, and several programs can annotate non-canonical base pairs in the RNA 3D structure. However, predicting the extended RNA secondary structure which describes both canonical and non-canonical interactions remains difficult. RESULTS: Here, we present RNAvista that allows predicting an extended RNA secondary structure from sequence or from the list enumerating canonical base pairs only. RNAvista is implemented as a publicly available webserver with user-friendly interface. It runs on all major web browsers. AVAILABILITY AND IMPLEMENTATION: http://rnavista.cs.put.poznan.pl

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