Hybrid Visualization of Protein-Lipid and Protein-Protein Interaction
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Date
2019
Authors
Alharbi, Naif
Krone, Michael
Chavent, Matthieu
Laramee, Robert S.
Krone, Michael
Chavent, Matthieu
Laramee, Robert S.
Journal Title
Journal ISSN
Volume Title
Publisher
The Eurographics Association
Abstract
In the Molecular Dynamics (MD) visualization literature, different approaches are utilized to study protein-lipid interactions (PLI) and protein-protein interaction (PPI) in decoupled contexts. However, the two types of interaction occur in the same space-time domain. It is beneficial to study the PLI and PPI in a unified context. Nevertheless, the simulation's size, length, and complexity increase the challenge of understanding the dynamic behavior. We propose a novel framework consisting of four linked views, a time-dependent 3D view, a novel hybrid view, a clustering timeline, and a details-on-demand window. We introduce a selection of visual designs to convey the behavior of PLI and PPI through a unified coordinate system. Abstraction is used to present proteins in hybrid 2D space, a projected tiled space is used to present both PLI and PPI at the particle level in a heat-map style visual design while glyphs are used to represent PPI at the molecular level. We couple visually separable visual designs in a unified coordinate space. The result lets the user study both PLI and PPI separately or together in a unified visual analysis framework. We also exemplify its use with case studies focusing on protein clustering and we report domain expert feedback.
Description
@inproceedings{10.2312:vcbm.20191247,
booktitle = {Eurographics Workshop on Visual Computing for Biology and Medicine},
editor = {Kozlíková, Barbora and Linsen, Lars and Vázquez, Pere-Pau and Lawonn, Kai and Raidou, Renata Georgia},
title = {{Hybrid Visualization of Protein-Lipid and Protein-Protein Interaction}},
author = {Alharbi, Naif and Krone, Michael and Chavent, Matthieu and Laramee, Robert S.},
year = {2019},
publisher = {The Eurographics Association},
ISSN = {2070-5786},
ISBN = {978-3-03868-081-9},
DOI = {10.2312/vcbm.20191247}
}