Integrative analysis of competing endogenous RNA networks reveals the functional lncRNAs in heart failure

Journal of Cellular and Molecular Medicine
Zhimin FanXuerui Tan

Abstract

Heart failure has become one of the top causes of death worldwide. It is increasing evidence that lncRNAs play important roles in the pathology processes of multiple cardiovascular diseases. Additionally, lncRNAs can function as ceRNAs by sponging miRNAs to affect the expression level of mRNAs, implicating in numerous biological processes. However, the functional roles and regulatory mechanisms of lncRNAs in heart failure are still unclear. In our study, we constructed a heart failure-related lncRNA-mRNA network by integrating probe re-annotation pipeline and miRNA-target interactions. Firstly, some lncRNAs that had the central topological features were found in the heart failure-related lncRNA-mRNA network. Then, the lncRNA-associated functional modules were identified from the network, using bidirectional hierarchical clustering. Some lncRNAs that involved in modules were demonstrated to be enriched in many heart failure-related pathways. To investigate the role of lncRNA-associated ceRNA crosstalks in certain disease or physiological status, we further identified the lncRNA-associated dysregulated ceRNA interactions. And we also performed a random walk algorithm to identify more heart failure-related lncRNAs. All these lncRN...Continue Reading

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Citations

Sep 5, 2019·American Journal of Physiology. Cell Physiology·Sébastien BonnetShizuka Uchida
Feb 13, 2020·Frontiers in Immunology·Jinghua WangZengyan Wang
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Nov 10, 2020·Cardiovascular Research·Laurel Y LeeJoseph Loscalzo
Apr 23, 2021·Environmental Science and Pollution Research International·Jie YuXiaomin Zhang

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Datasets Mentioned

BETA
GSE1145
GPL570

Methods Mentioned

BETA
immunoprecipitation
CLASH

Software Mentioned

R package “ pheatmap
Blastn
Cytoscape
MIAME
Ago
CLIP
Affymetrix
SAM
Ago CLIP

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