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NEXCADE: Perturbation analysis for complex networks

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Title NEXCADE: Perturbation analysis for complex networks
 
Creator Yadav, Gitanjali
Babu, Suresh
 
Subject NEXCADE
Perturbation Analysis
Complex Networks
 
Description Accepted date: June 29, 2012
Recent advances in network theory have led to considerable progress in our understanding of complex real world systems and their behavior in response to external threats or fluctuations. Much of this research has been invigorated by demonstration of the ‘robust, yet fragile’ nature of cellular and large-scale systems transcending biology, sociology, and ecology, through application of the network theory to diverse interactions observed in nature such as plant-pollinator, seed-dispersal agent and host-parasite relationships. In this work, we report the development of NEXCADE, an automated and interactive program for inducing disturbances into complex systems defined by networks, focusing on the changes in global network topology and connectivity as a function of the perturbation. NEXCADE uses a graph theoretical approach to simulate perturbations in a user-defined manner, singly, in clusters, or sequentially. To demonstrate the promise it holds for broader adoption by the research community, we provide pre-simulated examples from diverse real-world networks including eukaryotic protein-protein interaction networks, fungal biochemical networks, a variety of ecological food webs in nature as well as social networks. NEXCADE not only enables network visualization at every step of the targeted attacks, but also allows risk assessment, i.e. identification of nodes critical for the robustness of the system of interest, in order to devise and implement context-based strategies for restructuring a network, or to achieve resilience against link or node failures. Source code and license for the software, designed to work on a Linux-based operating system (OS) can be downloaded at http://www.nipgr.res.in/nexcade_download.html. In addition, we have developed NEXCADE as an OS-independent online web server freely available to the scientific community without any login requirement at http://www.nipgr.res.in/nexcade.html.
This work was funded by an Innovative Young Biotechnologist Award grant from the Department of Biotechnology, Government of India, awarded to Gitanjali Yadav. Financial support to Suresh Babu was provided by the Man & Biosphere Programme of the Ministry of Environment and Forests, Government of India. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
 
Date 2015-10-30T09:58:50Z
2015-10-30T09:58:50Z
2012
 
Type Article
 
Identifier PLoS One, 7(8): e41827
1932-6203
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0041827
http://172.16.0.77:8080/jspui/handle/123456789/291
 
Language en_US
 
Publisher PLOS