Integrated analysis of a competing endogenous RNA network reveals key lncRNAs as potential prognostic biomarkers for human bladder cancer

Medicine
Naiqiang ZhuYouxin Song

Abstract

Human bladder cancer (BCa) is one of the most commonly diagnosed malignancies worldwide. It has high recurrence rates and low-grade malignancy, thus representing an important public health concern. An increasing number of studies suggest that long-noncoding RNAs (lncRNAs) play important roles in various biological processes and disease pathologies, including cancer.We analyzed the expression profiles of lncRNA, miRNA, and mRNA, along with the clinical information of BCa patients collected from the Cancer Genome Atlas database to identify lncRNA biomarkers for prognosis. We also constructed an lncRNA-miRNA-mRNA global triple network (competitive endogenous RNA network) by bioinformational approach.This BCa lncRNA-miRNA-mRNA network consisted of 23 miRNA nodes, 52 mRNA nodes, 59 lncRNA nodes, and 365 edges. Subsequent gene ontology (GO) and pathway analyses were performed using BinGO for Cytoscape and Database for Annotation, Visualization, and Integration Discovery, respectively, highlighting important GO terms and pathways that were enriched in the network. Subnetworks were created using 3 key lncRNAs (MAGI2-AS3, ADAMTS9-AS2, and LINC00330), revealing associations with BCa-linked mRNAs and miRNAs. Finally, an analysis of signif...Continue Reading

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Citations

Jul 31, 2020·Journal of Cellular Physiology·Xiaolong XuJingwei Zhang
Jun 20, 2019·Molecular Biology Reports·Nouha Setti BoubakerSlah Ouerhani
Apr 2, 2020·Journal of Cellular and Molecular Medicine·Jiazhi JiangSheng Li
Dec 22, 2020·Journal of Cellular and Molecular Medicine·Shanghui ZhouChenping Zhang
Mar 26, 2021·Biomedicine & Pharmacotherapy = Biomédecine & Pharmacothérapie·Chen XueJunjun Jia

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Methods Mentioned

BETA
RNASeq
biopsy

Software Mentioned

EdgeR
GDC
miRcode
miRanda
BinGO
Cytoscape Database for Annotation , Visualization , and Integr...
R
gplots
Cytoscape
CytoHubba

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