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. 2020 Apr 21:2020:2860582.
doi: 10.1155/2020/2860582. eCollection 2020.

Construction of ceRNA Coexpression Network and Screening of Molecular Targets in Colorectal Cancer

Zhao Hui  1 , Wang Zhanwei  2 , Yang Xi  3 , Liu Jin  4 , Zhuang Jing  5 , Han Shuwen  3
Affiliations

Construction of ceRNA Coexpression Network and Screening of Molecular Targets in Colorectal Cancer

Zhao Hui et al. Dis Markers. .

Abstract

Objective: To screen some RNAs that correlated with colorectal cancer (CRC).

Methods: Differentially expressed miRNAs, lncRNAs, and mRNAs between cancer tissues and normal tissues in CRC were identified using data from the Gene Expression Omnibus (GEO) database. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and protein-protein interactions (PPIs) were performed to do the functional enrichment analysis. And a lncRNA-miRNA-mRNA network was constructed which correlated with CRC. RNAs in this network were subjected to analyze the relationship with the patient prognosis.

Results: A total of 688, 241, and 103 differentially expressed genes (diff-mRNA), diff-lncRNA, and diff-miRNA were obtained between cancer tissues and normal tissues. A total of 315 edges were obtained in the ceRNA network. lncRNA RP11-108K3.2 and mRNA ONECUT2 correlated with prognosis.

Conclusion: The identified RNAs and constructed ceRNA network could provide great sources for the researches of therapy of the CRC. And the lncRNA RP11-108K3.2 and mRNA ONECUT2 may serve as a novel prognostic predictor of CRC.

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Conflict of interest statement

The authors declare that no conflicts of interest exist.

Figures

Figure 1
Figure 1
Diagram of bioinformatics analysis.
Figure 2
Figure 2
The heat maps of the differentially expressed lncRNAs, miRNAs, and mRNAs in CRC. The relative expression of the differentially expressed lncRNAs (a), miRNAs (b), and mRNAs (c), respectively, between the cancer tissues and normal tissues. Green indicates downregulated RNAs, and red indicates upregulated RNAs.
Figure 3
Figure 3
The protein-protein interaction network of differentially expressed mRNAs. The purple nodes represented the upregulated mRNAs, and the green nodes represented the downregulated mRNAs. The higher the degree value is, the larger the nodes.
Figure 4
Figure 4
The protein-protein interaction network of differentially expressed mRNAs in module A (a) and module B (b). The purple nodes represented the upregulated mRNAs, and the green nodes represented the downregulated mRNAs. The higher the degree value is, the larger the nodes.
Figure 5
Figure 5
ceRNA network in CRC. The purple ellipse and the green diamond represented the up- and downregulated mRNAs, respectively. The orange ellipse and the blue diamond represented the up- and downregulated lncRNAs, respectively. The red triangle and the dark green arrow represented the up- and downregulated miRNAs, respectively. The red dotted line represented the coexpression relationships, and the black line represented the regulation relationships.
Figure 6
Figure 6
Survival curve with CRC containing differentially expressed RNAs. The mRNA, lncRNA, and miRNA expression levels and patient survival information from TCGA CRC data were used to plot the KM survival curve. The figure showed that the lncRNA RP11-108 K3.2 (a) and mRNA ONECUT2 (b) significantly correlated with prognosis of CRC.
See this image and copyright information in PMC

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