Integrative analysis of miRNA-mediated competing endogenous RNA network reveals the lncRNAs-mRNAs interaction in glioblastoma stem cell differentiation

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Author(s): Zhenyu Zhao, Cheng Zhang, Mi Li*, Xinguang Yu, Hailong Liu, Jian Wang, Qi Chen, Shaopin Shen, Jingjing Jiang.

Journal Name: Current Bioinformatics

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Abstract:

Background: Competing endogenous RNA (ceRNA) networks play a pivotal role in tumor diagnosis and progression. Numerous studies have explored the functional landscape and prognostic significance of ceRNA interaction within differentiated tumor cells.

Objective: We propose a new perspective by exploring ceRNA networks in the process of glioblastoma stem cell (GSC) differentiation.

Method: In this study, expression profiles of lncRNAs and mRNAs were compared between GSCs and differentiated glioblastoma cells. Using a comprehensive computational method, miRNAmediated and GSC differentiation-associated ceRNA crosstalk between lncRNAs and mRNAs was identified. A ceRNA network was then established to select potential candidates that regulate GSC differentiation.

Results: Based on the specific ceRNA network related to GSC differentiation, we identified lnc MYOSLID: 11 as a ceRNA that regulated the expression of the downstream gene PXN by competitively binding with hsa-miR-149-3p. After Kaplan-Meier (KM) survival analysis, the expression of PXN gene (PPXN = 0.0015) and lnc MYOSLID: 11 (PMYOSLID: 11=0.041) showed significant correlation with glioblastoma in 160 patients from TCGA.

Conclusion: This result sheds light on a potential way of studying the ceRNA network, which can provide clues for developing new diagnostic methods and finding therapeutic targets for clinical treatment of glioblastoma.

Keywords: glioblastoma stem cell (GSC), glioblastoma, ceRNA network, Bioinformatics

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(E-pub Ahead of Print)
DOI: 10.2174/1574893615999200511074226
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