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

Maciej Antczak; Marcin Zabłocki; Tomasz Żok; Agnieszka Rybarczyk; Jacek Błażewicz; Marta Szachniuk

doi:10.1093/bioinformatics/bty609

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Title

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

Authors

Maciej Antczak (WI) ^{[ 1 ][ 2.3 ][ P ]}
Marcin Zabłocki (WI) ^{[ 1 ][ D ]}
Tomasz Żok (WI) ^{[ 1 ][ 2.3 ][ P ]}
Agnieszka Rybarczyk (WI) ^{[ 1 ][ 2.3 ][ P ]}
Jacek Błażewicz (WI) ^{[ 1 ][ 2.3 ][ P ]}
Marta Szachniuk (WI) ^{[ 1 ][ 2.3 ][ P ]}

^{[ 1 ]} Instytut Informatyki, Wydział Informatyki, Politechnika Poznańska | ^{[ P ]} employee | ^{[ D ]} phd student

Scientific discipline (Law 2.0)

[2.3] Information and communication technology

Year of publication

2019

Published in

Bioinformatics

Journal year: 2019 | Journal volume: vol. 35 | Journal number: iss. 1

Article type

scientific article

Publication language

english

Abstract

EN 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.

Date of online publication

09.07.2018

Pages (from - to)

152 - 155

DOI

10.1093/bioinformatics/bty609

URL

https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/bty609/5050789

License type

CC BY-NC (attribution - noncommercial)

Open Access Mode

open journal