Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2018 Apr 19;8(6):897-913.
doi: 10.1002/2211-5463.12423. eCollection 2018 Jun.

Bioinformatic screening for key miRNAs and genes associated with myocardial infarction

Ke Wu  1   2 , Qiang Zhao  3 , Zhengmei Li  4 , Nannan Li  5 , Qiang Xiao  3 , Xiuchang Li  3 , Quanming Zhao  1
Affiliations

Bioinformatic screening for key miRNAs and genes associated with myocardial infarction

Ke Wu et al. FEBS Open Bio. .

Abstract

Despite significant advances in understanding of the causes of and treatment of myocardial infarction (MI) in recent years, morbidity and mortality is still high. The aim of this study was to identify miRNA and genes potentially associated with MI. mRNA and miRNA expression datasets were downloaded from the Gene Expression Omnibus database (http://www.ncbi.nlm.nih.gov/geo/). Interactions between miRNA and the expression and function of target genes were analyzed, and a protein-protein interaction network was constructed. The diagnostic value of identified miRNA and genes was assessed. Quantitative RT-PCR was applied to validate the results of the bioinformatics analysis. MiR-27a, miR-31*, miR-1291, miR-139-5p, miR-204, miR-375, and target genes including CX3CR1,HSPA6, and TPM3 had potential diagnostic value. The genes TFEB,IRS2,GRB2,FASLG,LIMS1,CX3CR1,HSPA6,TPM3,LAT2,CEBPD,AQP9, and MAPKAPK2 were associated with recovery from MI. In conclusion, the identified miRNA and genes might be associated with the pathology of MI.

Keywords: diagnostic biomarkers; miRNA‐target network; myocardial infarction; protein–protein interaction network.

PubMed Disclaimer

Figures

Figure 1
Figure 1
Heat map of top 100 DEGs in MI. Diagram presents the result of a two‐way hierarchical clustering of top 100 DEGs and samples. The clustering is constructed using the complete‐linkage method together with the Euclidean distance. Each row represents a DEG and each column, a sample. DEGs clustering tree is shown on the right. The color scale illustrates the relative level of DEGs expression: purple, below the reference channel; green, higher than the reference.
Figure 2
Figure 2
Heat map of all differentially expressed miRNA in MI. Diagram presents the result of a two‐way hierarchical clustering of all differentially expressed miRNA and samples. The clustering is constructed using the complete‐linkage method together with the Euclidean distance. Each row represents a miRNA and each column, a sample. The miRNA clustering tree is shown on the right. The color scale illustrates the relative level of miRNA expression: purple, below the reference channel; green, higher than the reference.
Figure 3
Figure 3
Interaction networks of miRNA and target DEGs in MI. (A) Up‐regulated miRNA and target genes; (B) the down‐regulated miRNA and target genes. The rhombus and ellipses represent the miRNA and target DEGs, respectively. The red and green colors represent up‐regulation and down‐regulation, respectively. Ellipses with blue and black border represent top 10 up‐regulation and down‐regulation, respectively.
Figure 4
Figure 4
Top 15 significant enrichment GO and KEGG terms of DEGs. (A) BP: biological process; (B) CC: cellular component; (C) MF: molecular function; (D) KEGG: signaling pathway.
Figure 5
Figure 5
The PPI networks of top 100 DEGs. All the ellipses are proteins encoded by top 100 DEGs. The red and green colors represent up‐regulation and down‐regulation, respectively. Ellipses with blue and black border represent top 10 up‐regulation and down‐regulation, respectively.
Figure 6
Figure 6
receiver operating characteristic curves of selected DEGs and differentially expressed miRNA between MI patients and healthy controls. (A) miR‐27a; (B) miR‐31*; (C) miR‐1291; (D) miR‐139‐5p; (E) miR‐204; (F) miR‐375; (G) CX3CR1; (H) HSPA6; (I) TPM3. The receiver operating characteristic curves were used to show the diagnostic ability of these selected DEGs and differentially expressed miRNA with specificity and sensitivity. The x‐axis shows 1‐specificity, and y‐axis shows sensitivity.
Figure 7
Figure 7
Validation differentially expressed miRNAs and genes in the MI blood by qRT‐PCR. (A) The expression of differentially expressed genes; (B) The expression of differentially expressed miRNAs.
Figure 8
Figure 8
Expression of DEGs in early stage of MI. Time 1: 12 h after blood collection; Time 2: 24 h after blood collection; Time 3: 36 h after blood collection; Time 4: 72 h after blood collection; Time 5: 84 h after blood collection; Time 6: 96 h after blood collection.
Figure 9
Figure 9
Recovery‐related analysis of DEGs.
See this image and copyright information in PMC

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Rodriguez M, Cai WJ, Kostin S, Lucchesi BR and Schaper J (2005) Ischemia depletes dystrophin and inhibits protein synthesis in the canine heart: mechanisms of myocardial ischemic injury. J Mol Cell Cardiol 38, 723–733. - PubMed
    1. Yamada Y, Ichihara S and Nishida T (2008) Molecular genetics of myocardial infarction. Genom Med 2, 7–22. - PMC - PubMed
    1. Swirski FK and Nahrendorf M (2013) Leukocyte behavior in atherosclerosis, myocardial infarction, and heart failure. Science 339, 161–166. - PMC - PubMed
    1. Weinberger T and Schulz C (2015) Myocardial infarction: a critical role of macrophages in cardiac remodeling. Front Physiol 6, 107. - PMC - PubMed
    1. Goldberger JJ, Bonow RO, Cuffe M, Liu L, Rosenberg Y, Shah PK, Smith SC Jr and Subacius H (2015) Effect of beta‐blocker dose on survival after acute myocardial infarction. J Am Coll Cardiol 66, 1431–1441. - PMC - PubMed

LinkOut - more resources