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VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences

The structure, dynamics and, ultimately, biological function of proteins and nucleic acids are determined by the physicochemical properties of their primary sequences. Such properties are frequently captured via one-dimensional profile plots depicting a given physicochemical variable as a function o...

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Detalles Bibliográficos
Autores principales: Bartonek, Lukas, Zagrovic, Bojan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602475/
https://www.ncbi.nlm.nih.gov/pubmed/31114895
http://dx.doi.org/10.1093/nar/gkz407
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author Bartonek, Lukas
Zagrovic, Bojan
author_facet Bartonek, Lukas
Zagrovic, Bojan
author_sort Bartonek, Lukas
collection PubMed
description The structure, dynamics and, ultimately, biological function of proteins and nucleic acids are determined by the physicochemical properties of their primary sequences. Such properties are frequently captured via one-dimensional profile plots depicting a given physicochemical variable as a function of sequence position. Hydrophobicity, charge or structural disorder in proteins or nucleobase-density in nucleic acids are routinely visualized in this manner to analyze sequences at a glance. Such visualizations, however, are typically created case-by-case in a purely static manner, employ fixed visualization parameters only and do not enable a quantitative comparison between different sequences. Here, we present VOLPES (volpes.univie.ac.at), a user-friendly web server and the corresponding JavaScript library that enable a fully interactive, multifunctional visualization, analysis and comparison of the physicochemical properties of protein and nucleic-acid sequences, allowing unprecedented insight into biological sequence data and creating a starting point for further in-depth exploration.
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spelling pubmed-66024752019-07-05 VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences Bartonek, Lukas Zagrovic, Bojan Nucleic Acids Res Web Server Issue The structure, dynamics and, ultimately, biological function of proteins and nucleic acids are determined by the physicochemical properties of their primary sequences. Such properties are frequently captured via one-dimensional profile plots depicting a given physicochemical variable as a function of sequence position. Hydrophobicity, charge or structural disorder in proteins or nucleobase-density in nucleic acids are routinely visualized in this manner to analyze sequences at a glance. Such visualizations, however, are typically created case-by-case in a purely static manner, employ fixed visualization parameters only and do not enable a quantitative comparison between different sequences. Here, we present VOLPES (volpes.univie.ac.at), a user-friendly web server and the corresponding JavaScript library that enable a fully interactive, multifunctional visualization, analysis and comparison of the physicochemical properties of protein and nucleic-acid sequences, allowing unprecedented insight into biological sequence data and creating a starting point for further in-depth exploration. Oxford University Press 2019-07-02 2019-05-22 /pmc/articles/PMC6602475/ /pubmed/31114895 http://dx.doi.org/10.1093/nar/gkz407 Text en © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Web Server Issue
Bartonek, Lukas
Zagrovic, Bojan
VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
title VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
title_full VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
title_fullStr VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
title_full_unstemmed VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
title_short VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
title_sort volpes: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602475/
https://www.ncbi.nlm.nih.gov/pubmed/31114895
http://dx.doi.org/10.1093/nar/gkz407
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