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Nightingale: web components for protein feature visualization

MOTIVATION: The visualization of biological data is a fundamental technique that enables researchers to understand and explain biology. Some of these visualizations have become iconic, for instance: tree views for taxonomy, cartoon rendering of 3D protein structures or tracks to represent features i...

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Autores principales: Salazar, Gustavo A, Luciani, Aurélien, Watkins, Xavier, Kandasaamy, Swaathi, Rice, Daniel L, Blum, Matthias, Bateman, Alex, Martin, Maria
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10287899/
https://www.ncbi.nlm.nih.gov/pubmed/37359723
http://dx.doi.org/10.1093/bioadv/vbad064
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author Salazar, Gustavo A
Luciani, Aurélien
Watkins, Xavier
Kandasaamy, Swaathi
Rice, Daniel L
Blum, Matthias
Bateman, Alex
Martin, Maria
author_facet Salazar, Gustavo A
Luciani, Aurélien
Watkins, Xavier
Kandasaamy, Swaathi
Rice, Daniel L
Blum, Matthias
Bateman, Alex
Martin, Maria
author_sort Salazar, Gustavo A
collection PubMed
description MOTIVATION: The visualization of biological data is a fundamental technique that enables researchers to understand and explain biology. Some of these visualizations have become iconic, for instance: tree views for taxonomy, cartoon rendering of 3D protein structures or tracks to represent features in a gene or protein, for instance in a genome browser. Nightingale provides visualizations in the context of proteins and protein features. RESULTS: Nightingale is a library of re-usable data visualization web components that are currently used by UniProt and InterPro, among other projects. The components can be used to display protein sequence features, variants, interaction data, 3D structure, etc. These components are flexible, allowing users to easily view multiple data sources within the same context, as well as compose these components to create a customized view. AVAILABILITY AND IMPLEMENTATION: Nightingale examples and documentation are freely available at https://ebi-webcomponents.github.io/nightingale/. It is distributed under the MIT license, and its source code can be found at https://github.com/ebi-webcomponents/nightingale.
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spelling pubmed-102878992023-06-24 Nightingale: web components for protein feature visualization Salazar, Gustavo A Luciani, Aurélien Watkins, Xavier Kandasaamy, Swaathi Rice, Daniel L Blum, Matthias Bateman, Alex Martin, Maria Bioinform Adv Application Note MOTIVATION: The visualization of biological data is a fundamental technique that enables researchers to understand and explain biology. Some of these visualizations have become iconic, for instance: tree views for taxonomy, cartoon rendering of 3D protein structures or tracks to represent features in a gene or protein, for instance in a genome browser. Nightingale provides visualizations in the context of proteins and protein features. RESULTS: Nightingale is a library of re-usable data visualization web components that are currently used by UniProt and InterPro, among other projects. The components can be used to display protein sequence features, variants, interaction data, 3D structure, etc. These components are flexible, allowing users to easily view multiple data sources within the same context, as well as compose these components to create a customized view. AVAILABILITY AND IMPLEMENTATION: Nightingale examples and documentation are freely available at https://ebi-webcomponents.github.io/nightingale/. It is distributed under the MIT license, and its source code can be found at https://github.com/ebi-webcomponents/nightingale. Oxford University Press 2023-05-24 /pmc/articles/PMC10287899/ /pubmed/37359723 http://dx.doi.org/10.1093/bioadv/vbad064 Text en © The Author(s) 2023. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Application Note
Salazar, Gustavo A
Luciani, Aurélien
Watkins, Xavier
Kandasaamy, Swaathi
Rice, Daniel L
Blum, Matthias
Bateman, Alex
Martin, Maria
Nightingale: web components for protein feature visualization
title Nightingale: web components for protein feature visualization
title_full Nightingale: web components for protein feature visualization
title_fullStr Nightingale: web components for protein feature visualization
title_full_unstemmed Nightingale: web components for protein feature visualization
title_short Nightingale: web components for protein feature visualization
title_sort nightingale: web components for protein feature visualization
topic Application Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10287899/
https://www.ncbi.nlm.nih.gov/pubmed/37359723
http://dx.doi.org/10.1093/bioadv/vbad064
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