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Publisher DOI: 10.1186/1471-2105-14-322
Title: 3DScapeCS : application of three dimensional, parallel, dynamic network visualization in Cytoscape
Language: English
Authors: Wang, Qi 
Tang, Biao 
Song, Lifu 
Ren, Biao 
Liang, Qun 
Xie, Feng 
Zhuo, Ying 
Liu, Xueting 
Zhang, Lixin 
Keywords: flux balance analysis;network visualization;layout algorithm;graph layout;motion graph
Issue Date: 14-Nov-2013
Publisher: BioMed Central ; Springer
Source: BMC Bioinformatics 1 (14): 322 (2013)
Journal or Series Name: BMC bioinformatics 
Abstract (english): Background: The exponential growth of gigantic biological data from various sources, such as protein-protein interaction (PPI), genome sequences scaffolding, Mass spectrometry (MS) molecular networking and metabolic flux, demands an efficient way for better visualization and interpretation beyond the conventional, two-dimensional visualization tools.Results: We developed a 3D Cytoscape Client/Server (3DScapeCS) plugin, which adopted Cytoscape in interpreting different types of data, and UbiGraph for three-dimensional visualization. The extra dimension is useful in accommodating, visualizing, and distinguishing large-scale networks with multiple crossed connections in five case studies.Conclusions: Evaluation on several experimental data using 3DScapeCS and its special features, including multilevel graph layout, time-course data animation, and parallel visualization has proven its usefulness in visualizing complex data and help to make insightful conclusions.
DOI: 10.15480/882.2000
ISSN: 1471-2105
Institute: Bioprozess- und Biosystemtechnik V-1 
Type: (wissenschaftlicher) Artikel
License: CC BY 2.0 (Attribution) CC BY 2.0 (Attribution)
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