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VisBOL2-Improving Web-Based Visualization for Synthetic Biology Designs.

Benjamin Hatch1, Linhao Meng2, Jeanet Mante3

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|July 29, 2021
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VisBOL2 is a redesigned genetic circuit visualization tool that improves upon the original VisBOL. It offers enhanced features for depicting DNA circuits, improving usability and compatibility in synthetic biology.

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Area of Science:

  • Synthetic Biology
  • Computational Biology
  • Bioinformatics

Background:

  • The original VisBOL tool effectively visualized simple DNA circuits but became outdated with new SBOL Visual standards.
  • There was a need for an updated visualization tool to accommodate the evolving complexity and standards in synthetic biology.

Purpose of the Study:

  • Introduce VisBOL2, a significantly redesigned version of the VisBOL tool.
  • Address the limitations of the original VisBOL by incorporating modern features and adhering to updated standards.

Main Methods:

  • Redesigned the VisBOL architecture for improved maintainability and modularity.
  • Implemented enhanced functional interaction rendering and dynamic viewing capabilities.
  • Integrated VisBOL2 into a sequence visualization plugin for SynBioHub to demonstrate modularity and compatibility.

Main Results:

  • VisBOL2 provides proper functional interaction rendering and dynamic viewing of genetic circuit designs.
  • The redesigned codebase is more maintainable and modular, enhancing compatibility with other software.
  • Successful integration into SynBioHub demonstrates the practical application and modularity of VisBOL2.

Conclusions:

  • VisBOL2 represents a substantial advancement over the original VisBOL for visualizing genetic circuits.
  • The tool's modularity and enhanced features facilitate its adoption and integration within the synthetic biology ecosystem.
  • VisBOL2 supports the growing complexity of synthetic biology designs and promotes interoperability.