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Identification of cancer-related miRNA-lncRNA biomarkers using a basic miRNA-lncRNA network

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Listed:
  • Guangle Zhang
  • Cong Pian
  • Zhi Chen
  • Jin Zhang
  • Mingmin Xu
  • Liangyun Zhang
  • Yuanyuan Chen

Abstract

LncRNAs are regulatory noncoding RNAs that play crucial roles in many biological processes. The dysregulation of lncRNA is thought to be involved in many complex diseases; lncRNAs are often the targets of miRNAs in the indirect regulation of gene expression. Numerous studies have indicated that miRNA-lncRNA interactions are closely related to the occurrence and development of cancers. Thus, it is important to develop an effective method for the identification of cancer-related miRNA-lncRNA interactions. In this study, we compiled 155653 experimentally validated and predicted miRNA-lncRNA associations, which we defined as basic interactions. We next constructed an individual-specific miRNA-lncRNA network (ISMLN) for each cancer sample and a basic miRNA-lncRNA network (BMLN) for each type of cancer by examining the expression profiles of miRNAs and lncRNAs in the TCGA (The Cancer Genome Atlas) database. We then selected potential miRNA-lncRNA biomarkers based on the BLMN. Using this method, we identified cancer-related miRNA-lncRNA biomarkers and modules specific to a certain cancer. This method of profiling will contribute to the diagnosis and treatment of cancers at the level of gene regulatory networks.

Suggested Citation

  • Guangle Zhang & Cong Pian & Zhi Chen & Jin Zhang & Mingmin Xu & Liangyun Zhang & Yuanyuan Chen, 2018. "Identification of cancer-related miRNA-lncRNA biomarkers using a basic miRNA-lncRNA network," PLOS ONE, Public Library of Science, vol. 13(5), pages 1-18, May.
    • Handle: RePEc:plo:pone00:0196681
    DOI: 10.1371/journal.pone.0196681
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