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      Statistically Validated Networks in Bipartite Complex Systems

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          Abstract

          Many complex systems present an intrinsic bipartite structure where elements of one set link to elements of the second set. In these complex systems, such as the system of actors and movies, elements of one set are qualitatively different than elements of the other set. The properties of these complex systems are typically investigated by constructing and analyzing a projected network on one of the two sets (for example the actor network or the movie network). Complex systems are often very heterogeneous in the number of relationships that the elements of one set establish with the elements of the other set, and this heterogeneity makes it very difficult to discriminate links of the projected network that are just reflecting system's heterogeneity from links relevant to unveil the properties of the system. Here we introduce an unsupervised method to statistically validate each link of a projected network against a null hypothesis that takes into account system heterogeneity. We apply the method to a biological, an economic and a social complex system. The method we propose is able to detect network structures which are very informative about the organization and specialization of the investigated systems, and identifies those relationships between elements of the projected network that cannot be explained simply by system heterogeneity. We also show that our method applies to bipartite systems in which different relationships might have different qualitative nature, generating statistically validated networks in which such difference is preserved.

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          Most cited references28

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          Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing

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            Emergence of scaling in random networks

            Systems as diverse as genetic networks or the World Wide Web are best described as networks with complex topology. A common property of many large networks is that the vertex connectivities follow a scale-free power-law distribution. This feature was found to be a consequence of two generic mechanisms: (i) networks expand continuously by the addition of new vertices, and (ii) new vertices attach preferentially to sites that are already well connected. A model based on these two ingredients reproduces the observed stationary scale-free distributions, which indicates that the development of large networks is governed by robust self-organizing phenomena that go beyond the particulars of the individual systems.
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              Maps of random walks on complex networks reveal community structure

              To comprehend the multipartite organization of large-scale biological and social systems, we introduce a new information theoretic approach that reveals community structure in weighted and directed networks. The method decomposes a network into modules by optimally compressing a description of information flows on the network. The result is a map that both simplifies and highlights the regularities in the structure and their relationships. We illustrate the method by making a map of scientific communication as captured in the citation patterns of more than 6000 journals. We discover a multicentric organization with fields that vary dramatically in size and degree of integration into the network of science. Along the backbone of the network -- including physics, chemistry, molecular biology, and medicine -- information flows bidirectionally, but the map reveals a directional pattern of citation from the applied fields to the basic sciences.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, USA )
                1932-6203
                2011
                31 March 2011
                : 6
                : 3
                : e17994
                Affiliations
                [1 ]Department of Social and Decision Sciences, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America
                [2 ]Dipartimento di Fisica, Università di Palermo, Palermo, Italy
                [3 ]Santa Fe Institute, Santa Fe, New Mexico, United States of America
                [4 ]Scuola Normale Superiore di Pisa, Pisa, Italy
                [5 ]Department of Physics and Astronomy, Turku Centre for Quantum Physics, University of Turku, Turun yliopisto, Finland
                Tel Aviv University, Israel
                Author notes

                Conceived and designed the experiments: MT SM FL JP RNM. Analyzed the data: MT SM RNM. Wrote the paper: MT SM FL JP RNM. Conceived the idea of the method: MT.

                Article
                PONE-D-11-00444
                10.1371/journal.pone.0017994
                3069038
                21483858
                aa4228ac-3d20-4790-9f57-814c29a9b46d
                Tumminello et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
                History
                : 22 December 2010
                : 17 February 2011
                Page count
                Pages: 11
                Categories
                Research Article
                Biology
                Computational Biology
                Genomics
                Comparative Genomics
                Systems Biology
                Systems Biology
                Mathematics
                Applied Mathematics
                Complex Systems
                Statistics
                Statistical Methods
                Physics
                Interdisciplinary Physics
                Statistical Mechanics
                Social and Behavioral Sciences
                Sociology
                Social Networks

                Uncategorized
                Uncategorized

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