LncRNA-Disease Association Prediction Using Two-Side Sparse Self-Representation

Research output: Contribution to journalArticle

Authors

  • Le Ou-yang
  • Jiang Huang
  • Xiao-fei Zhang
  • Yan-ran Li
  • Yiwen Sun
  • Zexuan Zhu

Colleges, School and Institutes

External organisations

  • Shenzhen University, Shenzhen, China
  • Fujian Normal University, Fuzhou, China
  • Central China Normal University, Wuhan, China

Abstract

Evidences increasingly indicate the involvement of long non-coding RNAs (lncRNAs) in various biological processes. As the mutations and abnormalities of lncRNAs are closely related to the progression of complex diseases, the identification of lncRNA-disease associations has become an important step toward the understanding and treatment of diseases. Since only a limited number of lncRNA-disease associations have been validated, an increasing number of computational approaches have been developed for predicting potential lncRNA-disease associations. However, how to predict potential associations precisely through computational approaches remains challenging. In this study, we propose a novel two-side sparse self-representation (TSSR) algorithm for lncRNA-disease association prediction. By learning the self-representations of lncRNAs and diseases from known lncRNA-disease associations adaptively, and leveraging the information provided by known lncRNA-disease associations and the intra-associations among lncRNAs and diseases derived from other existing databases, our model could effectively utilize the estimated representations of lncRNAs and diseases to predict potential lncRNA-disease associations. The experiment results on three real data sets demonstrate that our TSSR outperforms other competing methods significantly. Moreover, to further evaluate the effectiveness of TSSR in predicting potential lncRNAs-disease associations, case studies of Melanoma, Glioblastoma, and Glioma are carried out in this paper. The results demonstrate that TSSR can effectively identify some candidate lncRNAs associated with these three diseases.

Details

Original languageEnglish
Article number476
JournalFrontiers in Genetics
Volume10
Publication statusPublished - 28 May 2019

Keywords

  • lncRNAs-disease associations prediction, computational approaches, sparse representation, lncRNA similarity, disease similarity