A Network Based Method for Analysis of lncRNA-Disease Associations and Prediction of lncRNAs Implicated in Diseases

Increasing evidence has indicated that long non-coding RNAs (lncRNAs) are implicated in and associated with many complex human diseases. Despite of the accumulation of lncRNA-disease associations, only a few studies had studied the roles of these associations in pathogenesis.

In this paper, researchers at Xidian University investigated lncRNA-disease associations from a network view to understand the contribution of these lncRNAs to complex diseases. Specifically, they studied both the properties of the diseases in which the lncRNAs were implicated, and that of the lncRNAs associated with complex diseases. Regarding the fact that protein coding genes and lncRNAs are involved in human diseases, they constructed a coding-non-coding gene-disease bipartite network based on known associations between diseases and disease-causing genes. The researchers then applied a propagation algorithm to uncover the hidden lncRNA-disease associations in this network. The algorithm was evaluated by leave-one-out cross validation on 103 diseases in which at least two genes were known to be involved, and achieved an AUC of 0.7881. This algorithm successfully predicted 768 potential lncRNA-disease associations between 66 lncRNAs and 193 diseases. Furthermore, their results for Alzheimer’s disease, pancreatic cancer, and gastric cancer were verified by other independent studies.

lncRNA

  • Yang X, Gao L, Guo X, Shi X, Wu H, et al. (2014) A Network Based Method for Analysis of lncRNA-Disease Associations and Prediction of lncRNAs Implicated in Diseases. PLoS ONE 9(1),  e87797. [article]

A Network Based Method for Analysis of lncRNA-Disease Associations and Prediction of lncRNAs Implicated in Diseases

Increasing evidence has indicated that long non-coding RNAs (lncRNAs) are implicated in and associated with many complex human diseases. Despite of the accumulation of lncRNA-disease associations, only a few studies had studied the roles of these associations in pathogenesis.

In this paper, researchers at Xidian University investigated lncRNA-disease associations from a network view to understand the contribution of these lncRNAs to complex diseases. Specifically, they studied both the properties of the diseases in which the lncRNAs were implicated, and that of the lncRNAs associated with complex diseases. Regarding the fact that protein coding genes and lncRNAs are involved in human diseases, they constructed a coding-non-coding gene-disease bipartite network based on known associations between diseases and disease-causing genes. The researchers then applied a propagation algorithm to uncover the hidden lncRNA-disease associations in this network. The algorithm was evaluated by leave-one-out cross validation on 103 diseases in which at least two genes were known to be involved, and achieved an AUC of 0.7881. This algorithm successfully predicted 768 potential lncRNA-disease associations between 66 lncRNAs and 193 diseases. Furthermore, their results for Alzheimer’s disease, pancreatic cancer, and gastric cancer were verified by other independent studies.

lncRNA

  • Yang X, Gao L, Guo X, Shi X, Wu H, et al. (2014) A Network Based Method for Analysis of lncRNA-Disease Associations and Prediction of lncRNAs Implicated in Diseases. PLoS ONE 9(1),  e87797. [article]

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