Identification of a prognostic model using cuproptosis-related genes in uveal melanoma
The most common intraocular malignancy in adults remains uveal melanoma (UVM), and those with metastatic disease have a poor outlook. Proliferation, angiogenesis, and metastasis of tumor cells can be triggered by cuproptosis, affecting the survival of cancer patients. Nonetheless, cuproptosis-relate...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-08-01
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| Series: | Frontiers in Cell and Developmental Biology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fcell.2022.973073/full |
| _version_ | 1828432037019648000 |
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| author | Yao Chen Yao Chen Yao Chen Xiaozhen Chen Xiaozhen Chen Xianggui Wang Xianggui Wang Xianggui Wang |
| author_facet | Yao Chen Yao Chen Yao Chen Xiaozhen Chen Xiaozhen Chen Xianggui Wang Xianggui Wang Xianggui Wang |
| author_sort | Yao Chen |
| collection | DOAJ |
| description | The most common intraocular malignancy in adults remains uveal melanoma (UVM), and those with metastatic disease have a poor outlook. Proliferation, angiogenesis, and metastasis of tumor cells can be triggered by cuproptosis, affecting the survival of cancer patients. Nonetheless, cuproptosis-related genes (CRGs) have not been identified in UVM. In this study, we analyzed 10 CRGs in 80 patients with UVM in the Cancer Genome Atlas (TCGA) database regarding the alterations of the genes including copy number variation and methylation. We further constructed a prognostic gene model using these CRGs and built the risk score formula. Univariate and multivariate Cox regression was applied to validate the risk score as an independent prognostic factor. The prognostic model was validated using 63 UVM samples from the GSE22138 cohort, an independent validation data set. Based on the risk scores for 80 patients with UVM from TCGA, we categorized the patients into high- and low-risk groups. Differentially expressed genes (DEGs) between groups were enriched in allograft rejection, hypoxia, glycolysis, TNFα signaling via NF-κB, and interferon-γ responses via Gene set enrichment analysis (GSEA). CD8 T cells and exhausted T cells were notably enriched in the high-risk group. In conclusion, the alteration of CRGs is related to patients with UVM, and the constructed CRG-related model may be helpful to predict the prognosis of such patients. |
| first_indexed | 2024-12-10T18:14:01Z |
| format | Article |
| id | doaj.art-29c20e35d38e4a258da1a97cbc21a8c8 |
| institution | Directory Open Access Journal |
| issn | 2296-634X |
| language | English |
| last_indexed | 2024-12-10T18:14:01Z |
| publishDate | 2022-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cell and Developmental Biology |
| spelling | doaj.art-29c20e35d38e4a258da1a97cbc21a8c82022-12-22T01:38:23ZengFrontiers Media S.A.Frontiers in Cell and Developmental Biology2296-634X2022-08-011010.3389/fcell.2022.973073973073Identification of a prognostic model using cuproptosis-related genes in uveal melanomaYao Chen0Yao Chen1Yao Chen2Xiaozhen Chen3Xiaozhen Chen4Xianggui Wang5Xianggui Wang6Xianggui Wang7Department of Ophthalmology, Xiangya Hospital, Central South University, Changsha, ChinaHunan Key Laboratory of Ophthalmology, Xiangya Hospital, Central South University, Changsha, ChinaNational Clinical Research Center for Geriatric Disorders, Xiangya Hospital, Central South University, Changsha, ChinaNational Clinical Research Center for Geriatric Disorders, Xiangya Hospital, Central South University, Changsha, ChinaHunan Key Laboratory of Skin Cancer and Psoriasis, Xiangya Hospital, Central South University, Changsha, ChinaDepartment of Ophthalmology, Xiangya Hospital, Central South University, Changsha, ChinaHunan Key Laboratory of Ophthalmology, Xiangya Hospital, Central South University, Changsha, ChinaNational Clinical Research Center for Geriatric Disorders, Xiangya Hospital, Central South University, Changsha, ChinaThe most common intraocular malignancy in adults remains uveal melanoma (UVM), and those with metastatic disease have a poor outlook. Proliferation, angiogenesis, and metastasis of tumor cells can be triggered by cuproptosis, affecting the survival of cancer patients. Nonetheless, cuproptosis-related genes (CRGs) have not been identified in UVM. In this study, we analyzed 10 CRGs in 80 patients with UVM in the Cancer Genome Atlas (TCGA) database regarding the alterations of the genes including copy number variation and methylation. We further constructed a prognostic gene model using these CRGs and built the risk score formula. Univariate and multivariate Cox regression was applied to validate the risk score as an independent prognostic factor. The prognostic model was validated using 63 UVM samples from the GSE22138 cohort, an independent validation data set. Based on the risk scores for 80 patients with UVM from TCGA, we categorized the patients into high- and low-risk groups. Differentially expressed genes (DEGs) between groups were enriched in allograft rejection, hypoxia, glycolysis, TNFα signaling via NF-κB, and interferon-γ responses via Gene set enrichment analysis (GSEA). CD8 T cells and exhausted T cells were notably enriched in the high-risk group. In conclusion, the alteration of CRGs is related to patients with UVM, and the constructed CRG-related model may be helpful to predict the prognosis of such patients.https://www.frontiersin.org/articles/10.3389/fcell.2022.973073/fulluveal melanomacuproptosissignatureprognosisbioinfomatics |
| spellingShingle | Yao Chen Yao Chen Yao Chen Xiaozhen Chen Xiaozhen Chen Xianggui Wang Xianggui Wang Xianggui Wang Identification of a prognostic model using cuproptosis-related genes in uveal melanoma Frontiers in Cell and Developmental Biology uveal melanoma cuproptosis signature prognosis bioinfomatics |
| title | Identification of a prognostic model using cuproptosis-related genes in uveal melanoma |
| title_full | Identification of a prognostic model using cuproptosis-related genes in uveal melanoma |
| title_fullStr | Identification of a prognostic model using cuproptosis-related genes in uveal melanoma |
| title_full_unstemmed | Identification of a prognostic model using cuproptosis-related genes in uveal melanoma |
| title_short | Identification of a prognostic model using cuproptosis-related genes in uveal melanoma |
| title_sort | identification of a prognostic model using cuproptosis related genes in uveal melanoma |
| topic | uveal melanoma cuproptosis signature prognosis bioinfomatics |
| url | https://www.frontiersin.org/articles/10.3389/fcell.2022.973073/full |
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