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. 2013:2013:523415.
doi: 10.1155/2013/523415. Epub 2013 Dec 18.

Identification of age-related macular degeneration related genes by applying shortest path algorithm in protein-protein interaction network

Jian Zhang  1 , Min Jiang  2 , Fei Yuan  2 , Kai-Yan Feng  3 , Yu-Dong Cai  4 , Xun Xu  1 , Lei Chen  5
Affiliations

Identification of age-related macular degeneration related genes by applying shortest path algorithm in protein-protein interaction network

Jian Zhang et al. Biomed Res Int. 2013.

Abstract

This study attempted to find novel age-related macular degeneration (AMD) related genes based on 36 known AMD genes. The well-known shortest path algorithm, Dijkstra's algorithm, was applied to find the shortest path connecting each pair of known AMD related genes in protein-protein interaction (PPI) network. The genes occurring in any shortest path were considered as candidate AMD related genes. As a result, 125 novel AMD genes were predicted. The further analysis based on betweenness and permutation test indicates that there are 10 genes involved in the formation or development of AMD and may be the actual AMD related genes with high probability. We hope that this contribution would promote the study of age-related macular degeneration and discovery of novel effective treatments.

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Figures

Figure 1
Figure 1
The top 9 GO terms shared by 125 genes. The X-axis lists GO's ID and name, while the Y-axis represents the number of genes shared the GO term among the 125 genes.
Figure 2
Figure 2
The 5 KEGG pathways shared by 125 genes. The X-axis lists pathway's ID and name, while the Y-axis represents the number of genes shared the pathway among the 125 genes.
See this image and copyright information in PMC

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