Subcellular Localization Charts: A New Visual Methodology for the Semi-Automatic Localization of Protein-Related Data Sets

Abstract

The CELLmicrocosmos PathwayIntegration (CmPI) was developed to support and visualize the subcellular localization prediction of protein-related data such as protein-interaction networks. From the start it was possible to manually analyze the localizations by using an interactive table. It was, however, quite complicated to compare and analyze the different localization results derived from data integration as well as text-mining-based databases. The current software release provides a new interactive visual workflow, the Subcellular Localization Charts. As an application case, a MUPP1-related protein-protein interaction network is localized and semi-automatically analyzed. It will be shown that the workflow was dramatically improved and simplified. In addition, it is now possible to use custom protein-related data by using the SBML format and get a view of predicted protein localizations mapped onto a virtual cell model.

Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell

“…We also discussed different coloring methods applied to the cell components, trying to mimic the realistic appearance of the cell. Of course, there exist alternative coloring approaches, like the one we introduced providing a contrasting color set which is ignoring the natural coloring but comes with the advantage that it is also applicable to larger numbers of differentiable cell component types [21], [84]. However, as the cell components here were modeled with different shapes and textures they are easily distinguishable.…”

From Single Variants to Protein Cascades

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Stereoscopic Space Map – Semi-immersive Configuration of 3D-stereoscopic Tours in Multi-display Environments

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