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VisBOL2—Improving Web-Based Visualization for Synthetic Biology Designs

Cite this: ACS Synth. Biol. 2021, 10, 8, 2111–2115
Publication Date (Web):July 29, 2021
https://doi.org/10.1021/acssynbio.1c00147
Copyright © 2021 American Chemical Society

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    Abstract

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    VisBOL is a web-based visualization tool used to depict genetic circuit designs. This tool depicts simple DNA circuits adequately, but it has become increasingly outdated as new versions of SBOL Visual were released. This paper introduces VisBOL2, a heavily redesigned version of VisBOL that makes a number of improvements to the original VisBOL, including proper functional interaction rendering, dynamic viewing, a more maintainable code base, and modularity that facilitates compatibility with other software tools. This modularity is demonstrated by incorporating VisBOL2 into a sequence visualization plugin for SynBioHub.

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    Cited By

    This article is cited by 3 publications.

    1. Gonzalo Vidal, Carolus Vitalis, Timothy J. Rudge. LOICA: Integrating Models with Data for Genetic Network Design Automation. ACS Synthetic Biology 2022, 11 (5) , 1984-1990. https://doi.org/10.1021/acssynbio.1c00603
    2. Bryan A. Bartley. Tyto: A Python Tool Enabling Better Annotation Practices for Synthetic Biology Data-Sharing. ACS Synthetic Biology 2022, 11 (3) , 1373-1376. https://doi.org/10.1021/acssynbio.1c00450
    3. Charlie J Clark, James Scott-Brown, Thomas E Gorochowski. paraSBOLv: a foundation for standard-compliant genetic design visualization tools. Synthetic Biology 2021, 6 (1) https://doi.org/10.1093/synbio/ysab022