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

Kovanci, Gökhan ; Ghaffar, Mehmood ; Sommer, Björn

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)


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Abstract:
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.


Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Kovanci, Gökhan ; Ghaffar, Mehmood ; Sommer, Björn  (2016)  Web-based hybrid-dimensional Visualization and Exploration of Cytological Localization Scenarios. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 13(4): Special Issue: 12th International Symposium on Integrative Bioinformatics, Bielefeld, Germany, 2016

Online-Journal: http://journal.imbio.de/article.php?aid=298
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2017/5443



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