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Published on: July 30, 2011
Microarray expression profiling and bioinformatics analysis of circular RNA expression in lung squamous cell
Jiali Xu1, Yongqian Shu1, Tongpeng Xu1
1Department of Oncology, The First Affiliated Hospital of Nanjing Medical University, Jiangsu Province HospitalNo. 300 Guangzhou Road, Nanjing 210029, Jiangsu Province, People's Republic of China.
Abstract:
Circular RNAs (circRNAs) are novel noncoding RNAs with a wide range of physiological and pathological activities. However, the expression profile and roles in lung squamous cell carcinoma (LSCC) remain largely unknown. Therefore, we investigated the expression profile of circRNAs in three LSCC and matched adjacent normal tissues using microarray. Total 216 differentially expressed circRNAs were identified, including 135 upregulated and 81 downregulated ones in LSCC tissues. Bioinformatics analysis revealed that these differentially expressed circRNAs were potentially implicated in carcinogenesis using Gene ontology (GO) and KEGG pathway analyses. By constructing miRNA-circRNA interaction network, a total of ten key circRNAs, including 6 upregulated and 4 downregulated circRNAs were further screened and then confirmed using qRT-PCR analysis in another 40 paired of LSCC tissues and adjacent normal tissues. In addition, Kaplan-Meier survival analysis demonstrated that the overall survival time of LSCC patients with high hsa_circRNA_103827 expression and low hsa_circRNA_000122 was significantly shorter (P<0.001). In conclusion, this study provides evidence that circRNAs are differentially expressed in LSCC and closely related to the carcinogenesis of LSCC. Among these, hsa_circRNA_103827 and hsa_circRNA_000122 might be served as potential prognostic biomarkers and therapeutic target for LSCC.
Insights
Circular RNAs (circRNAs) show altered expression in lung squamous cell carcinoma (LSCC), potentially driving cancer development. Specific circRNAs, like hsa_circRNA_103827 and hsa_circRNA_000122, may serve as key biomarkers for LSCC prognosis and treatment.
Area of Science:
- Molecular Biology
- Oncology
- Genetics
Background:
- Circular RNAs (circRNAs) are emerging as critical regulators in various biological processes.
- The specific roles and expression patterns of circRNAs in lung squamous cell carcinoma (LSCC) are not well understood.
Purpose of the Study:
- To investigate the differential expression of circRNAs in LSCC tissues compared to adjacent normal tissues.
- To identify potential circRNA biomarkers for LSCC diagnosis and prognosis.
Main Methods:
- Microarray analysis to screen differentially expressed circRNAs in LSCC tissues.
- Bioinformatics analysis (GO, KEGG pathways) to predict functions of identified circRNAs.
- Quantitative real-time PCR (qRT-PCR) to validate key circRNAs.
- Kaplan-Meier survival analysis to assess prognostic significance.
Main Results:
- Identified 216 differentially expressed circRNAs in LSCC, with 135 upregulated and 81 downregulated.
- Bioinformatics analysis suggested involvement of these circRNAs in carcinogenesis.
- Validated ten key circRNAs, including hsa_circRNA_103827 and hsa_circRNA_000122.
- High expression of hsa_circRNA_103827 and low expression of hsa_circRNA_000122 correlated with shorter patient survival.
Conclusions:
- CircRNAs are significantly dysregulated in LSCC and are associated with its development.
- hsa_circRNA_103827 and hsa_circRNA_000122 show potential as prognostic biomarkers for LSCC.
- These specific circRNAs may represent novel therapeutic targets for LSCC treatment.
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