Screening for differentially expressed circRNAs in ischemic stroke by RNA sequencing

Background Ischemic stroke is a disease with high rate of death and disability worldwide. CircRNAs, as a novel type of non-coding RNAs, lacking 5' caps and 3' poly-A tails, has been associated with ischemic stroke. This study aimed to investigate key circRNAs related to ischemic stroke. Me...

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Bibliographic Details
Published in:BMC neurology 2021-09, Vol.21 (1), p.1-370, Article 370
Main Authors: Wei, Duncan, Chen, Jian, Chen, Xiaopu, Wu, Shaoyan, Chen, Zhaolin, Huang, Yinting, Shen, Zibin, He, Wenzhen
Format: Article
Language:English
Subjects:
Binding sites
Cell cycle
CircRNA
Development and progression
Diagnosis
Disease
Gene expression
Genetic aspects
Health aspects
High-throughput sequencing
Host gene
Ischemia
Ischemic stroke
Lymphocytes T
miRNA
Pathogenesis
RNA
RNA sequencing
Signal transduction
Stroke
Stroke (Disease)
T cell receptors
Thermal cycling
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Summary:Background Ischemic stroke is a disease with high rate of death and disability worldwide. CircRNAs, as a novel type of non-coding RNAs, lacking 5' caps and 3' poly-A tails, has been associated with ischemic stroke. This study aimed to investigate key circRNAs related to ischemic stroke. Methods RNA sequencing was performed obtain the circRNA expression profiles from peripheral whole blood of three ischemic stroke patients and three healthy individuals. Through bioinformatic analysis, differentially expressed circRNAs (DEcircRNAs) were identified, and GO and pathway analyses for the host genes of DEcircRNAs were conducted. The expression levels of selected circRNAs were analyzed with qRT-PCR. To further explore the functions of key circRNAs, a DEcircRNA-miRNA interaction network was constructed. Results A total of 736 DEcircRNAs were detected in ischemic stroke. Functional annotation of host genes of DEcircRNAs revealed several significantly enriched pathways, including Fc epsilon RI signaling pathway, B cell receptor signaling pathway, and T cell receptor signaling pathway. The qRT-PCR results were largely in keeping with our RNA-seq data. The ROC curve analyses indicated that hsa_circ_0000745, hsa_circ_0001459, hsa_circ_0003694 and hsa_circ_0007706 with relatively high diagnostic value. A circRNA-miRNA network, including 1544 circRNA-miRNA pairs, 456 circRNAs and 4 miRNAs, was obtained. Conclusions The results of our study may help to elucidate the specific mechanism underlying ischemic stroke. Keywords: Ischemic stroke, CircRNA, High-throughput sequencing, Host gene
ISSN:1471-2377
1471-2377
DOI:10.1186/s12883-021-02397-0