CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma
Abstract Background Most sarcomatoid differentiated renal cell carcinoma was differentiated from Chromophobe renal cell carcinoma (KICH) and related to a bad prognosis. Thus, finding biomarkers is important for the therapy of KICH. Methods The UCSC was used for determining the expression of mRNA and...
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| Format: | Article |
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BMC
2023-11-01
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| Series: | European Journal of Medical Research |
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| Online Access: | https://doi.org/10.1186/s40001-023-01449-0 |
| _version_ | 1827770685240377344 |
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| author | Hui-feng Wu Hao Liu Zhe-wei Zhang Ji-min Chen |
| author_facet | Hui-feng Wu Hao Liu Zhe-wei Zhang Ji-min Chen |
| author_sort | Hui-feng Wu |
| collection | DOAJ |
| description | Abstract Background Most sarcomatoid differentiated renal cell carcinoma was differentiated from Chromophobe renal cell carcinoma (KICH) and related to a bad prognosis. Thus, finding biomarkers is important for the therapy of KICH. Methods The UCSC was used for determining the expression of mRNA and miRNA and clinical data in KICH and normal samples. KEGG and GO were used for predicting potential function of differently expressed genes (DEGs). Optimal prognostic markers were determined by Lasso regression. Kaplan–Meier survival, ROC, and cox regression were used for assessing prognosis value. GSEA was used for predicting potential function of markers. The relations between markers and immune cell infiltration were determined by Pearson method. The upstream miRNA of markers was predicted in TargetScan and DIANA. Results The 6162 upregulated and 13,903 downregulated DEGs were identified in KICH. Further CENPE and LDHA were screened out as optimal prognostic risk signatures. CENPE was highly expressed while LDHA was lowly expressed in KICH samples, and the high expressions of 2 genes contributed to bad prognosis. The functions of CENPE and LDHA were mainly enriched in proliferation related pathways such as cell cycle and DNA replication. In addition, the correlation of 2 genes with immune infiltrates in KICH was also observed. Finally, we found that has-miR-577 was the common upstream of 2 genes and the binding sites can be predicted. Conclusion CENPE and LDHA were identified as the important prognostic biomarkers in KICH, and they might be involved in the proliferation of cancer cell. |
| first_indexed | 2024-03-11T12:43:06Z |
| format | Article |
| id | doaj.art-c418e502a04b464c8ce013efe5729105 |
| institution | Directory Open Access Journal |
| issn | 2047-783X |
| language | English |
| last_indexed | 2024-03-11T12:43:06Z |
| publishDate | 2023-11-01 |
| publisher | BMC |
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| series | European Journal of Medical Research |
| spelling | doaj.art-c418e502a04b464c8ce013efe57291052023-11-05T12:11:13ZengBMCEuropean Journal of Medical Research2047-783X2023-11-0128111310.1186/s40001-023-01449-0CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinomaHui-feng Wu0Hao Liu1Zhe-wei Zhang2Ji-min Chen3Department of Urology, The Second Affiliated Hospital, Zhejiang University School of MedicineDepartment of Urology, The Second Affiliated Hospital, Zhejiang University School of MedicineDepartment of Urology, The Second Affiliated Hospital, Zhejiang University School of MedicineDepartment of Urology, The Second Affiliated Hospital, Zhejiang University School of MedicineAbstract Background Most sarcomatoid differentiated renal cell carcinoma was differentiated from Chromophobe renal cell carcinoma (KICH) and related to a bad prognosis. Thus, finding biomarkers is important for the therapy of KICH. Methods The UCSC was used for determining the expression of mRNA and miRNA and clinical data in KICH and normal samples. KEGG and GO were used for predicting potential function of differently expressed genes (DEGs). Optimal prognostic markers were determined by Lasso regression. Kaplan–Meier survival, ROC, and cox regression were used for assessing prognosis value. GSEA was used for predicting potential function of markers. The relations between markers and immune cell infiltration were determined by Pearson method. The upstream miRNA of markers was predicted in TargetScan and DIANA. Results The 6162 upregulated and 13,903 downregulated DEGs were identified in KICH. Further CENPE and LDHA were screened out as optimal prognostic risk signatures. CENPE was highly expressed while LDHA was lowly expressed in KICH samples, and the high expressions of 2 genes contributed to bad prognosis. The functions of CENPE and LDHA were mainly enriched in proliferation related pathways such as cell cycle and DNA replication. In addition, the correlation of 2 genes with immune infiltrates in KICH was also observed. Finally, we found that has-miR-577 was the common upstream of 2 genes and the binding sites can be predicted. Conclusion CENPE and LDHA were identified as the important prognostic biomarkers in KICH, and they might be involved in the proliferation of cancer cell.https://doi.org/10.1186/s40001-023-01449-0CENPELDHAChromophobe renal cell carcinomaPrognosis |
| spellingShingle | Hui-feng Wu Hao Liu Zhe-wei Zhang Ji-min Chen CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma European Journal of Medical Research CENPE LDHA Chromophobe renal cell carcinoma Prognosis |
| title | CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma |
| title_full | CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma |
| title_fullStr | CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma |
| title_full_unstemmed | CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma |
| title_short | CENPE and LDHA were potential prognostic biomarkers of chromophobe renal cell carcinoma |
| title_sort | cenpe and ldha were potential prognostic biomarkers of chromophobe renal cell carcinoma |
| topic | CENPE LDHA Chromophobe renal cell carcinoma Prognosis |
| url | https://doi.org/10.1186/s40001-023-01449-0 |
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