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Predicting disease-related genes by topological similarity in human protein-protein interaction network

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Zhang L., Hu K., Tang Y.

Open Physics

2010

vol. 8

issue 4

672-682

Predicting genes likely to be involved in human diseases is an important task in bioinformatics field. Nowadays, the accumulation of human protein-protein interactions (PPIs) data provides us an unprecedented opportunity to gain insight into human diseases. In this paper, we adopt the topological similarity in human protein-protein interaction network to predict disease-related genes. As a computational algorithm to speed up the identification of disease-related genes, the topological similarity has substantial advantages over previous topology-based algorithms. First of all, it provides a global measurement of similarity between two vertices. Secondly, quantity which can measure new topological feature has been integrated into the notion of topological similarity. Our method is specially designed for predicting disease-related genes of single disease-gene family. The proposed method is applied to human protein-protein interaction and hepatocellular carcinoma (HCC) data. The results show a significant enrichment of disease-related genes that are characterized by higher topological similarity than other genes.

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1 Open Physics

1 2010

1 Hu K.

1 Tang Y.

1 Zhang L.

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Predicting disease-related genes by topological similarity in human protein-protein interaction network