Cargando…

RNAcanvas: interactive drawing and exploration of nucleic acid structures

Two-dimensional drawing of nucleic acid structures, particularly RNA structures, is fundamental to the communication of nucleic acids research. However, manually drawing structures is laborious and infeasible for structures thousands of nucleotides long. RNAcanvas automatically arranges residues int...

Descripción completa

Detalles Bibliográficos
Autores principales: Johnson, Philip Z, Simon, Anne E
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10320051/
https://www.ncbi.nlm.nih.gov/pubmed/37094080
http://dx.doi.org/10.1093/nar/gkad302
_version_ 1785068366650671104
author Johnson, Philip Z
Simon, Anne E
author_facet Johnson, Philip Z
Simon, Anne E
author_sort Johnson, Philip Z
collection PubMed
description Two-dimensional drawing of nucleic acid structures, particularly RNA structures, is fundamental to the communication of nucleic acids research. However, manually drawing structures is laborious and infeasible for structures thousands of nucleotides long. RNAcanvas automatically arranges residues into strictly shaped stems and loops while providing robust interactive editing features, including click-and-drag layout adjustment. Drawn elements are highly customizable in a point-and-click manner, including colours, fonts, size and shading, flexible numbering, and outlining of bases. Tertiary interactions can be drawn as draggable, curved lines. Leontis-Westhof notation for depicting non-canonical base-pairs is fully supported, as well as text labels for structural features (e.g. hairpins). RNAcanvas also has many unique features and performance optimizations for large structures that cannot be correctly predicted and require manual refinement based on the researcher's own analyses and expertise. To this end, RNAcanvas has point-and-click structure editing with real-time highlighting of complementary sequences and motif search functionality, novel features that greatly aid in the identification of putative long-range tertiary interactions, de novo analysis of local structures, and phylogenetic comparisons. For ease in producing publication quality figures, drawings can be exported in both SVG and PowerPoint formats. URL: https://rnacanvas.app.
format Online
Article
Text
id pubmed-10320051
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-103200512023-07-06 RNAcanvas: interactive drawing and exploration of nucleic acid structures Johnson, Philip Z Simon, Anne E Nucleic Acids Res Web Server Issue Two-dimensional drawing of nucleic acid structures, particularly RNA structures, is fundamental to the communication of nucleic acids research. However, manually drawing structures is laborious and infeasible for structures thousands of nucleotides long. RNAcanvas automatically arranges residues into strictly shaped stems and loops while providing robust interactive editing features, including click-and-drag layout adjustment. Drawn elements are highly customizable in a point-and-click manner, including colours, fonts, size and shading, flexible numbering, and outlining of bases. Tertiary interactions can be drawn as draggable, curved lines. Leontis-Westhof notation for depicting non-canonical base-pairs is fully supported, as well as text labels for structural features (e.g. hairpins). RNAcanvas also has many unique features and performance optimizations for large structures that cannot be correctly predicted and require manual refinement based on the researcher's own analyses and expertise. To this end, RNAcanvas has point-and-click structure editing with real-time highlighting of complementary sequences and motif search functionality, novel features that greatly aid in the identification of putative long-range tertiary interactions, de novo analysis of local structures, and phylogenetic comparisons. For ease in producing publication quality figures, drawings can be exported in both SVG and PowerPoint formats. URL: https://rnacanvas.app. Oxford University Press 2023-04-24 /pmc/articles/PMC10320051/ /pubmed/37094080 http://dx.doi.org/10.1093/nar/gkad302 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Web Server Issue
Johnson, Philip Z
Simon, Anne E
RNAcanvas: interactive drawing and exploration of nucleic acid structures
title RNAcanvas: interactive drawing and exploration of nucleic acid structures
title_full RNAcanvas: interactive drawing and exploration of nucleic acid structures
title_fullStr RNAcanvas: interactive drawing and exploration of nucleic acid structures
title_full_unstemmed RNAcanvas: interactive drawing and exploration of nucleic acid structures
title_short RNAcanvas: interactive drawing and exploration of nucleic acid structures
title_sort rnacanvas: interactive drawing and exploration of nucleic acid structures
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10320051/
https://www.ncbi.nlm.nih.gov/pubmed/37094080
http://dx.doi.org/10.1093/nar/gkad302
work_keys_str_mv AT johnsonphilipz rnacanvasinteractivedrawingandexplorationofnucleicacidstructures
AT simonannee rnacanvasinteractivedrawingandexplorationofnucleicacidstructures