The EntOptLayout Cytoscape plug-in for the efficient visualization of major protein complexes in protein-protein interaction and signalling networks
The EntOptLayout Cytoscape plug-in for the efficient visualization of major protein complexes in protein-protein interaction and signalling networks
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DOI：
10.1093/bioinformatics/btz257
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发表时间：
2019-11-01
期刊：
影响因子：
5.8
通讯作者：
Kovacs, Istvan A.
中科院分区：
文献类型：
--
作者：
Agg, Bence;Csaszar, Andrea;Kovacs, Istvan A.
动机：复杂生物数据集的网络可视化通常会产生毛球图像，而不区分网络模块。结果：基于最近发展的网络表示理论，我们提出了EntOptLayout Cytoscape插件。该插件提供了网络模块的高效可视化，这些模块代表蛋白质-蛋白质相互作用和信号网络中的主要蛋白质复合体。重要的是，该工具通过计算输入数据和视觉表示之间的信息损失来给网络可视化的质量评分，显示出比传统方法3到25倍的改进。
Motivation: Network visualizations of complex biological datasets usually result in 'hairball' images, which do not discriminate network modules.Results: We present the EntOptLayout Cytoscape plug-in based on a recently developed network representation theory. The plug-in provides an efficient visualization of network modules, which represent major protein complexes in protein-protein interaction and signalling networks. Importantly, the tool gives a quality score of the network visualization by calculating the information loss between the input data and the visual representation showing a 3- to 25-fold improvement over conventional methods.