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Article


Title

RNAsolo: a repository of cleaned PDB-derived RNA 3D structures

Authors

[ 1 ] Wydział Informatyki i Telekomunikacji, Politechnika Poznańska | [ 2 ] Instytut Informatyki, Wydział Informatyki i Telekomunikacji, Politechnika Poznańska | [ S ] student | [ P ] employee

Scientific discipline (Law 2.0)

[2.3] Information and communication technology

Year of publication

2022

Published in

Bioinformatics

Journal year: 2022 | Journal volume: vol. 38 | Journal number: iss. 14

Article type

scientific article

Publication language

english

Keywords
EN
  • experimentally determined RNA structures
  • RNA 3D structure and sequence
  • benchmark datasets
Abstract

EN Motivation: The development of algorithms dedicated to RNA three-dimensional (3D) structures contributes to the demand for training, testing and benchmarking data. A reliable source of such data derived from computational pre- diction is the RNA-Puzzles repository. In contrast, the largest resource with experimentally determined structures is the Protein Data Bank. However, files in this archive often contain other molecular data in addition to the RNA struc- ture itself, which—to be used by RNA processing algorithms—should be removed. Results: RNAsolo is a self-updating database dedicated to RNA bioinformatics. It systematically collects experimen- tally determined RNA 3D structures stored in the PDB, cleans them from non-RNA chains, and groups them into equivalence classes. It allows users to download various subsets of data—clustered by resolution, source, data for- mat, etc.—for further processing and analysis with a single click.

Date of online publication

08.06.2022

Pages (from - to)

3668 - 3670

DOI

10.1093/bioinformatics/btac386

URL

https://academic.oup.com/bioinformatics/advance-article-abstract/doi/10.1093/bioinformatics/btac386/6604270

License type

CC BY-NC (attribution - noncommercial)

Open Access Mode

czasopismo hybrydowe

Open Access Text Version

final published version

Date of Open Access to the publication

at the time of publication

Points of MNiSW / journal

200.0

Impact Factor

6.937 [List 2020]

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