A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs
Abstract Background This work aims to analyze the relationship between necroptosis-related microRNAs (miRNAs) and the prognosis of clear cell renal cell carcinoma (ccRCC). Methods The miRNAs expression profiles of ccRCC and normal renal tissues from The Cancer Genome Atlas (TCGA) database were used...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2023-03-01
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| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12864-023-09258-9 |
| _version_ | 1797854006788227072 |
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| author | Zuhu Yu Chong Lu Bin Lu Hong Gao Rongfang Liang Wuxing Xiang |
| author_facet | Zuhu Yu Chong Lu Bin Lu Hong Gao Rongfang Liang Wuxing Xiang |
| author_sort | Zuhu Yu |
| collection | DOAJ |
| description | Abstract Background This work aims to analyze the relationship between necroptosis-related microRNAs (miRNAs) and the prognosis of clear cell renal cell carcinoma (ccRCC). Methods The miRNAs expression profiles of ccRCC and normal renal tissues from The Cancer Genome Atlas (TCGA) database were used to construct a matrix of the 13 necroptosis-related miRNAs. Cox regression analysis was used to construct a signature to predict the overall survival of ccRCC patients. The genes targeted by the necroptosis-related miRNAs in the prognostic signature were predicted using miRNA databases. Gene Ontology (Go) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were used to investigate the genes targeted by the necroptosis-related miRNAs. The expression levels of selected miRNAs in 15 paired samples (of ccRCC tissues and adjacent normal renal tissues) were investigated using reverse transcriptase quantitative polymerase chain reaction (RT-qPCR). Results Six necroptosis-related miRNAs were found to differentially expressed between ccRCC and normal renal tissues. A prognostic signature consisting of miR-223-3p, miR-200a-5p, and miR-500a-3p was constructed using Cox regression analysis and risk scores were calculated. Multivariate Cox regression analysis showed that the hazard ratio was 2.0315 (1.2627–3.2685, P = 0.0035), indicating that the risk score of the signature was an independent risk factor. The receiver operating characteristic (ROC) curve showed that the signature has a favorable predictive capacity and the Kaplan-Meier survival analysis indicated that ccRCC patients with higher risk scores had worse prognoses (P < 0.001). The results of the RT-qPCR verified that all three miRNAs used in the signature were differentially expressed between ccRCC and normal tissues (P < 0.05). Conclusion The three necroptosis-related-miRNAs used in this study could be a valuable signature for the prognosis of ccRCC patients. Necroptosis-related miRNAs should be further explored as prognostic indicators for ccRCC. |
| first_indexed | 2024-04-09T19:59:57Z |
| format | Article |
| id | doaj.art-ae205bdb4b9141ae82b6f0c24256b250 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-04-09T19:59:57Z |
| publishDate | 2023-03-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-ae205bdb4b9141ae82b6f0c24256b2502023-04-03T05:17:40ZengBMCBMC Genomics1471-21642023-03-0124111110.1186/s12864-023-09258-9A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAsZuhu Yu0Chong Lu1Bin Lu2Hong Gao3Rongfang Liang4Wuxing Xiang5Department of Urology, University of Chinese Academy of Sciences-Shenzhen HospitalAnhui Medical UniversityDepartment of Urology, University of Chinese Academy of Sciences-Shenzhen HospitalDepartment of Urology, University of Chinese Academy of Sciences-Shenzhen HospitalDepartment of Urology, University of Chinese Academy of Sciences-Shenzhen HospitalDepartment of Urology, University of Chinese Academy of Sciences-Shenzhen HospitalAbstract Background This work aims to analyze the relationship between necroptosis-related microRNAs (miRNAs) and the prognosis of clear cell renal cell carcinoma (ccRCC). Methods The miRNAs expression profiles of ccRCC and normal renal tissues from The Cancer Genome Atlas (TCGA) database were used to construct a matrix of the 13 necroptosis-related miRNAs. Cox regression analysis was used to construct a signature to predict the overall survival of ccRCC patients. The genes targeted by the necroptosis-related miRNAs in the prognostic signature were predicted using miRNA databases. Gene Ontology (Go) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were used to investigate the genes targeted by the necroptosis-related miRNAs. The expression levels of selected miRNAs in 15 paired samples (of ccRCC tissues and adjacent normal renal tissues) were investigated using reverse transcriptase quantitative polymerase chain reaction (RT-qPCR). Results Six necroptosis-related miRNAs were found to differentially expressed between ccRCC and normal renal tissues. A prognostic signature consisting of miR-223-3p, miR-200a-5p, and miR-500a-3p was constructed using Cox regression analysis and risk scores were calculated. Multivariate Cox regression analysis showed that the hazard ratio was 2.0315 (1.2627–3.2685, P = 0.0035), indicating that the risk score of the signature was an independent risk factor. The receiver operating characteristic (ROC) curve showed that the signature has a favorable predictive capacity and the Kaplan-Meier survival analysis indicated that ccRCC patients with higher risk scores had worse prognoses (P < 0.001). The results of the RT-qPCR verified that all three miRNAs used in the signature were differentially expressed between ccRCC and normal tissues (P < 0.05). Conclusion The three necroptosis-related-miRNAs used in this study could be a valuable signature for the prognosis of ccRCC patients. Necroptosis-related miRNAs should be further explored as prognostic indicators for ccRCC.https://doi.org/10.1186/s12864-023-09258-9ccRCCNecroptosismiRNAPrognosis |
| spellingShingle | Zuhu Yu Chong Lu Bin Lu Hong Gao Rongfang Liang Wuxing Xiang A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs BMC Genomics ccRCC Necroptosis miRNA Prognosis |
| title | A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs |
| title_full | A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs |
| title_fullStr | A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs |
| title_full_unstemmed | A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs |
| title_short | A novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis-related miRNAs |
| title_sort | novel prognostic signature for clear cell renal cell carcinoma constructed using necroptosis related mirnas |
| topic | ccRCC Necroptosis miRNA Prognosis |
| url | https://doi.org/10.1186/s12864-023-09258-9 |
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