NetGestalt: integrating multidimensional omics data over biological networks

Z Shi, J Wang, B Zhang - Nature methods, 2013 - nature.com
Nature methods, 2013nature.com
To the Editor: Network visualization is typically based on nodelink diagrams, which quickly
become inadequate as network size and data complexity increase1. To address this
challenge, we developed NetGestalt (http://www. netgestalt. org/), a web application for
integrating multidimensional omics data over biological networks. NetGestalt exploits the
inherent hierarchical modular architecture of biological networks2 to achieve high
scalability. Instead of using a two-dimensional node-link diagram (Fig. 1a), NetGestalt …
To the Editor: Network visualization is typically based on nodelink diagrams, which quickly become inadequate as network size and data complexity increase1. To address this challenge, we developed NetGestalt (http://www. netgestalt. org/), a web application for integrating multidimensional omics data over biological networks. NetGestalt exploits the inherent hierarchical modular architecture of biological networks2 to achieve high scalability. Instead of using a two-dimensional node-link diagram (Fig. 1a), NetGestalt places the nodes of a network along the horizontal dimension of a web page on the basis of the hierarchical architecture of the network (Fig. 1b) and displays the network-module annotation at different scales below the ordered nodes (Fig. 1c). Visualization in the horizontal dimension conveys the functional relationship between different nodes (such as genes) as encoded in the network. Notably, this transformation makes it possible to render node-related information from different data sources and existing knowledge as tracks along the vertical dimension of the web page for visual comparison and integration.
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