A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA
Ferroptosis is an iron-dependent programmed cell death related to the biological process of many kinds of tumors. Long noncoding RNAs (LncRNA) have been found to play essential roles in the tumor, and their functions in the ferroptosis of tumor cells have been partially discovered. However, there is...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-10-01
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| Series: | Frontiers in Oncology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fonc.2022.929960/full |
| _version_ | 1817983508301217792 |
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| author | Yamin Rao Jinchao Zhu Haiyan Zheng Wei Dong Qingyuan Lin |
| author_facet | Yamin Rao Jinchao Zhu Haiyan Zheng Wei Dong Qingyuan Lin |
| author_sort | Yamin Rao |
| collection | DOAJ |
| description | Ferroptosis is an iron-dependent programmed cell death related to the biological process of many kinds of tumors. Long noncoding RNAs (LncRNA) have been found to play essential roles in the tumor, and their functions in the ferroptosis of tumor cells have been partially discovered. However, there is no summary of ferroptosis-related LncRNA and its functions in melanoma. In the present study, we aim to explore the expression profile of ferroptosis-related LncRNA genes and their value in melanoma prognosis by bioinformatics analysis. The expression of ferroptosis-related gene (FRG) from melanoma clinical data was extracted based on the Cancer Genome Atlas (TCGA) database. By screening the RNA expression data of 472 cases of melanoma and 810 cases of normal skin, eighteen ferroptosis-related differential genes were found to be related to the overall survival rate. Furthermore, 384 ferroptosis-related LncRNAs were discovered through constructing the mRNA-LncRNA co-expression network, and ten of them were found with prognostic significance in melanoma by multivariate Cox analysis. Risk assessment showed that the high expression of LncRNA00520 is associated with poor prognosis, while the increased expression of the other LncRNA is beneficial to the prognosis of patients with melanoma. From univariate and multivariate Cox regression analysis, there were ten ferroptosis-related LncRNA risk models towards to be significant independent prognostic factors for patients with melanoma and valuable predictive factors for overall survival (OS)(P<0.05). The ROC curve further suggested that the risk score has relatively reliable predictive ability (AUC=0.718). The protein level of ferroptosis-related genes was verified by the HPA database and IHC test, leading to the discovery that the expressions of ALOX5, PEBP1, ACSL4, and ZEB1 proteins up-regulated in tumor tissues, and existed differences between tumor tissues and normal tissues. In conclusion, we identified ten ferroptosis-related LncRNA and constructed a prognosis model base. |
| first_indexed | 2024-04-13T23:34:04Z |
| format | Article |
| id | doaj.art-1099b79ac50242e8a4c04f2cd3d2d8dd |
| institution | Directory Open Access Journal |
| issn | 2234-943X |
| language | English |
| last_indexed | 2024-04-13T23:34:04Z |
| publishDate | 2022-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Oncology |
| spelling | doaj.art-1099b79ac50242e8a4c04f2cd3d2d8dd2022-12-22T02:24:49ZengFrontiers Media S.A.Frontiers in Oncology2234-943X2022-10-011210.3389/fonc.2022.929960929960A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNAYamin Rao0Jinchao Zhu1Haiyan Zheng2Wei Dong3Qingyuan Lin4Department of Pathology, Shanghai Ninth People’s Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of Pathology, Shanghai Ninth People’s Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of Pathology, Shanghai Ninth People’s Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of Pathology, Eastern Hepatobilliary Surgery Hospital, The Second Military Medical University, Shanghai, ChinaDepartment of Pathology, Shanghai Ninth People’s Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaFerroptosis is an iron-dependent programmed cell death related to the biological process of many kinds of tumors. Long noncoding RNAs (LncRNA) have been found to play essential roles in the tumor, and their functions in the ferroptosis of tumor cells have been partially discovered. However, there is no summary of ferroptosis-related LncRNA and its functions in melanoma. In the present study, we aim to explore the expression profile of ferroptosis-related LncRNA genes and their value in melanoma prognosis by bioinformatics analysis. The expression of ferroptosis-related gene (FRG) from melanoma clinical data was extracted based on the Cancer Genome Atlas (TCGA) database. By screening the RNA expression data of 472 cases of melanoma and 810 cases of normal skin, eighteen ferroptosis-related differential genes were found to be related to the overall survival rate. Furthermore, 384 ferroptosis-related LncRNAs were discovered through constructing the mRNA-LncRNA co-expression network, and ten of them were found with prognostic significance in melanoma by multivariate Cox analysis. Risk assessment showed that the high expression of LncRNA00520 is associated with poor prognosis, while the increased expression of the other LncRNA is beneficial to the prognosis of patients with melanoma. From univariate and multivariate Cox regression analysis, there were ten ferroptosis-related LncRNA risk models towards to be significant independent prognostic factors for patients with melanoma and valuable predictive factors for overall survival (OS)(P<0.05). The ROC curve further suggested that the risk score has relatively reliable predictive ability (AUC=0.718). The protein level of ferroptosis-related genes was verified by the HPA database and IHC test, leading to the discovery that the expressions of ALOX5, PEBP1, ACSL4, and ZEB1 proteins up-regulated in tumor tissues, and existed differences between tumor tissues and normal tissues. In conclusion, we identified ten ferroptosis-related LncRNA and constructed a prognosis model base.https://www.frontiersin.org/articles/10.3389/fonc.2022.929960/fullferroptosismelanomaprognosis modellncRNAbioinformatics analysis |
| spellingShingle | Yamin Rao Jinchao Zhu Haiyan Zheng Wei Dong Qingyuan Lin A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA Frontiers in Oncology ferroptosis melanoma prognosis model lncRNA bioinformatics analysis |
| title | A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA |
| title_full | A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA |
| title_fullStr | A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA |
| title_full_unstemmed | A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA |
| title_short | A novel melanoma prognostic model based on the ferroptosis-related long non-coding RNA |
| title_sort | novel melanoma prognostic model based on the ferroptosis related long non coding rna |
| topic | ferroptosis melanoma prognosis model lncRNA bioinformatics analysis |
| url | https://www.frontiersin.org/articles/10.3389/fonc.2022.929960/full |
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