Parallel computation and interactive visualization of time-varying solvent excluded surfaces
Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology
Immersive out-of-core visualization of large-size and long-timescale molecular dynamics trajectories
ISVC'11 Proceedings of the 7th international conference on Advances in visual computing - Volume Part II
Visualization for the Physical Sciences
Computer Graphics Forum
Accelerated visualization of dynamic molecular surfaces
EuroVis'10 Proceedings of the 12th Eurographics / IEEE - VGTC conference on Visualization
Interactive exploration of protein cavities
EuroVis'11 Proceedings of the 13th Eurographics / IEEE - VGTC conference on Visualization
Illustrative molecular visualization with continuous abstraction
EuroVis'11 Proceedings of the 13th Eurographics / IEEE - VGTC conference on Visualization
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Molecular dynamics simulations of proteins play a growing role in various fields such as pharmaceutical, biochemical and medical research. Accordingly, the need for high quality visualization of these protein systems raises. Highly interactive visualization techniques are especially needed for the analysis of time-dependent molecular simulations. Beside various other molecular representations the surface representations are of high importance for these applications. So far, users had to accept a trade-off between rendering quality and performance—particularly when visualizing trajectories of time-dependent protein data. We present a new approach for visualizing the Solvent Excluded Surface of proteins using a GPU ray casting technique and thus achieving interactive frame rates even for long protein trajectories where conventional methods based on precomputation are not applicable. Furthermore, we propose a semantic simplification of the raw protein data to reduce the visual complexity of the surface and thereby accelerate the rendering without impeding perception of the protein’s basic shape. We also demonstrate the application of our Solvent Excluded Surface method to visualize the spatial probability density for the protein atoms over the whole period of the trajectory in one frame, providing a qualitative analysis of the protein flexibility.