RNAsolo: a repository of cleaned PDB-derived RNA 3D structures.
Journal
Bioinformatics (Oxford, England)
ISSN: 1367-4811
Titre abrégé: Bioinformatics
Pays: England
ID NLM: 9808944
Informations de publication
Date de publication:
11 07 2022
11 07 2022
Historique:
received:
12
01
2022
revised:
22
04
2022
accepted:
02
06
2022
pubmed:
9
6
2022
medline:
15
11
2022
entrez:
8
6
2022
Statut:
ppublish
Résumé
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 prediction 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 structure itself, which-to be used by RNA processing algorithms-should be removed. RNAsolo is a self-updating database dedicated to RNA bioinformatics. It systematically collects experimentally 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 format, etc.-for further processing and analysis with a single click. The repository is publicly available at https://rnasolo.cs.put.poznan.pl.
Identifiants
pubmed: 35674373
pii: 6604270
doi: 10.1093/bioinformatics/btac386
pmc: PMC9272803
doi:
Substances chimiques
RNA
63231-63-0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
3668-3670Subventions
Organisme : Poznan University of Technology
Organisme : Institute of Bioorganic Chemistry PAS
Organisme : National Science Centre
ID : 2019/35/B/ST6/03074
Informations de copyright
© The Author(s) 2022. Published by Oxford University Press.