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Web-based hybrid-dimensional Visualization and Exploration of Cytological Localization Scenarios

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2016

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Kovanci, Gökhan

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https://doi.org/10.2390/biecoll-jib-2016-298
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Journal of Integrative Bioinformatics. 2016, 13(5), 298. eISSN 1613-4516. Available under: doi: 10.2390/biecoll-jib-2016-298

Zusammenfassung

The CELLmicrocosmos 4.2 PathwayIntegration (CmPI) is a tool which provides hybrid-dimensional visualization and analysis of intracellular protein and gene localizations in the context of a virtual 3D environment. This tool is developed based on Java/Java3D/JOGL and provides a standalone application compatible to all relevant operating systems. However, it requires Java and the local installation of the software. Here we present the prototype of an alternative web-based visualization approach, using Three.js and D3.js. In this way it is possible to visualize and explore CmPI-generated localization scenarios including networks mapped to 3D cell components by just providing a URL to a collaboration partner. This publication describes the integration of the different technologies – Three.js, D3.js and PHP – as well as an application case: a localization scenario of the citrate cycle. The CmPI web viewer is available at: http://CmPIweb.CELLmicrocosmos.org.

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ISO 690KOVANCI, Gökhan, Mehmood GHAFFAR, Björn SOMMER, 2016. Web-based hybrid-dimensional Visualization and Exploration of Cytological Localization Scenarios. In: Journal of Integrative Bioinformatics. 2016, 13(5), 298. eISSN 1613-4516. Available under: doi: 10.2390/biecoll-jib-2016-298
BibTex
@article{Kovanci2016Webba-36644,
  year={2016},
  doi={10.2390/biecoll-jib-2016-298},
  title={Web-based hybrid-dimensional Visualization and Exploration of Cytological Localization Scenarios},
  number={5},
  volume={13},
  journal={Journal of Integrative Bioinformatics},
  author={Kovanci, Gökhan and Ghaffar, Mehmood and Sommer, Björn},
  note={Article Number: 298}
}
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