Finding Influential Spreaders from Human Activity beyond Network Location.
Ontology highlight
ABSTRACT:
SUBMITTER: Min B
PROVIDER: S-EPMC4554996 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:Influential spreaders are the crucial nodes in a complex network that can act as a controller or a maximizer of a spreading process. For example, we can control the virus propagation in an epidemiological network by controlling the behavior of such influential nodes, and amplify the information propagation in a social network by using them as a maximizer. Many indexing methods have been proposed in the literature to identify the influential spreaders in a network. Nevertheless, we have notice that each individual network holds different connectivity structures that we classify as complete, incomplete, or in-between based on their components and density. These affect the accuracy of existing indexing methods in the identification of the best influential spreaders. Thus, no single indexing strategy is sufficient from all varieties of network connectivity structures. This article proposes a new indexing method Network Global Structure-based Centrality (ngsc) which intelligently combines existing kshell and sum of neighbors' degree methods with knowledge of the network's global structural properties, such as the giant component, average degree, and percolation threshold. The experimental results show that our proposed method yields a better spreading performance of the seed spreaders over a large variety of network connectivity structures, and correlates well with ranking based on an SIR model used as ground truth. It also out-performs contemporary techniques and is competitive with more sophisticated approaches that are computationally cost.
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Project description:Identifying influential spreaders in networks, which contributes to optimizing the use of available resources and efficient spreading of information, is of great theoretical significance and practical value. A random-walk-based algorithm LeaderRank has been shown as an effective and efficient method in recognizing leaders in social network, which even outperforms the well-known PageRank method. As LeaderRank is initially developed for binary directed networks, further extensions should be studied in weighted networks. In this paper, a generalized algorithm PhysarumSpreader is proposed by combining LeaderRank with a positive feedback mechanism inspired from an amoeboid organism called Physarum Polycephalum. By taking edge weights into consideration and adding the positive feedback mechanism, PhysarumSpreader is applicable in both directed and undirected networks with weights. By taking two real networks for examples, the effectiveness of the proposed method is demonstrated by comparing with other standard centrality measures.
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Project description:Influence maximization is the problem of finding the set of nodes of a network that maximizes the size of the outbreak of a spreading process occurring on the network. Solutions to this problem are important for strategic decisions in marketing and political campaigns. The typical setting consists in the identification of small sets of initial spreaders in very large networks. This setting makes the optimization problem computationally infeasible for standard greedy optimization algorithms that account simultaneously for information about network topology and spreading dynamics, leaving space only to heuristic methods based on the drastic approximation of relying on the geometry of the network alone. The literature on the subject is plenty of purely topological methods for the identification of influential spreaders in networks. However, it is unclear how far these methods are from being optimal. Here, we perform a systematic test of the performance of a multitude of heuristic methods for the identification of influential spreaders. We quantify the performance of the various methods on a corpus of 100 real-world networks; the corpus consists of networks small enough for the application of greedy optimization so that results from this algorithm are used as the baseline needed for the analysis of the performance of the other methods on the same corpus of networks. We find that relatively simple network metrics, such as adaptive degree or closeness centralities, are able to achieve performances very close to the baseline value, thus providing good support for the use of these metrics in large-scale problem settings. Also, we show that a further 2-5% improvement towards the baseline performance is achievable by hybrid algorithms that combine two or more topological metrics together. This final result is validated on a small collection of large graphs where greedy optimization is not applicable.
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Project description:Measuring and optimizing the influence of nodes in big-data online social networks are important for many practical applications, such as the viral marketing and the adoption of new products. As the viral spreading on a social network is a global process, it is commonly believed that measuring the influence of nodes inevitably requires the knowledge of the entire network. Using percolation theory, we show that the spreading process displays a nucleation behavior: Once a piece of information spreads from the seeds to more than a small characteristic number of nodes, it reaches a point of no return and will quickly reach the percolation cluster, regardless of the entire network structure; otherwise the spreading will be contained locally. Thus, we find that, without the knowledge of the entire network, any node's global influence can be accurately measured using this characteristic number, which is independent of the network size. This motivates an efficient algorithm with constant time complexity on the long-standing problem of best seed spreaders selection, with performance remarkably close to the true optimum.
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Project description:BACKGROUND: Understanding cellular systems requires the knowledge of a protein's subcellular localization (SCL). Although experimental and predicted data for protein SCL are archived in various databases, SCL prediction remains a non-trivial problem in genome annotation. Current SCL prediction tools use amino-acid sequence features and text mining approaches. A comprehensive analysis of protein SCL in human PPI and metabolic networks for various subcellular compartments is necessary for developing a robust SCL prediction methodology. RESULTS: Based on protein-protein interaction (PPI) and metabolite-linked protein interaction (MLPI) networks of proteins, we have compared, contrasted and analysed the statistical properties across different subcellular compartments. We integrated PPI and metabolic datasets with SCL information of human proteins from LOCATE and GOA (Gene Ontology Annotation) and estimated three statistical properties: Chi-square (?2) test, Paired Localisation Correlation Profile (PLCP) and network topological measures. For the PPI network, Pearson's chi-square test shows that for the same SCL category, twice as many interacting protein pairs are observed than estimated when compared to non-interacting protein pairs (?2 = 1270.19, P-value < 2.2 × 10(-16)), whereas for MLPI, metabolite-linked protein pairs having the same SCL are observed 20% more than expected, compared to non-metabolite linked proteins (?2 = 110.02, P-value < 2.2 x10(-16)). To address the issue of proteins with multiple SCLs, we have specifically used the PLCP (Pair Localization Correlation Profile) measure. PLCP analysis revealed that protein interactions are majorly restricted to the same SCL, though significant cross-compartment interactions are seen for nuclear proteins. Metabolite-linked protein pairs are restricted to specific compartments such as the mitochondrion (P-value < 6.0e-07), the lysosome (P-value < 4.7e-05) and the Golgi apparatus (P-value < 1.0e-15). These findings indicate that the metabolic network adds value to the information in the PPI network for the localisation process of proteins in human subcellular compartments. CONCLUSIONS: The MLPI network differs significantly from the PPI network in its SCL distribution. The PPI network shows passive protein interaction, possibly due to its high false positive rate, across different subcellular compartments, which seem to be absent in the MLPI network, as the MLPI network has evolved to maintain high substrate specificity for proteins.
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Project description:ObjectiveOnline health communities (OHCs) have become a major source of support for people with health problems. This research tries to improve our understanding of social influence and to identify influential users in OHCs. The outcome can facilitate OHC management, improve community sustainability, and eventually benefit OHC users.MethodsThrough text mining and sentiment analysis of users' online interactions, the research revealed sentiment dynamics in threaded discussions. A novel metric--the number of influential responding replies--was proposed to directly measure a user's ability to affect the sentiment of others.ResultsUsing the dataset from a popular OHC, the research demonstrated that the proposed metric is highly effective in identifying influential users. In addition, combining the metric with other traditional measures further improves the identification of influential users.
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Project description:Superfamily classifications are based variably on similarity of sequences, global folds, local structures, or functions. We have examined the possibility of defining superfamilies purely from the viewpoint of the global fold/function relationship. For this purpose, we first classified protein domains according to the beta-sheet topology. We then introduced the concept of kinship relations among the classified beta-sheet topology by assuming that the major elementary event leading to creation of a new beta-sheet topology is either an addition or deletion of one beta-strand at the edge of an existing beta-sheet during the molecular evolution. Based on this kinship relation, a network of protein domains was constructed so that the distance between a pair of domains represents the number of evolutionary events that lead one from the other domain. We then mapped on it all known domains with a specific core chemical function (here taken, as an example, that involving ATP or its analogs). Careful analyses revealed that the domains are found distributed on the network as >20 mutually disjointed clusters. The proteins in each cluster are defined to form a fold-based superfamily. The results indicate that >20 ATP-binding protein superfamilies have been invented independently in the process of molecular evolution, and the conservative evolutionary diffusion of global folds and functions is the origin of the relationship between them.
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