The prognostic values of m6A RNA methylation regulators in uveal melanoma
Abstract Background The aim of this study was to identify gene signatures and prognostic values of m6A methylation regulators in uveal melanoma (UM). Methods The RNA sequencing dataset and corresponding clinical information were downloaded from TCGA and GEO database. Based on the expression of m6A R...
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| Format: | Article |
| Language: | English |
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BMC
2020-07-01
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| Series: | BMC Cancer |
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| Online Access: | http://link.springer.com/article/10.1186/s12885-020-07159-8 |
| _version_ | 1818216408393187328 |
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| author | Jing Tang Qi Wan Jianqun Lu |
| author_facet | Jing Tang Qi Wan Jianqun Lu |
| author_sort | Jing Tang |
| collection | DOAJ |
| description | Abstract Background The aim of this study was to identify gene signatures and prognostic values of m6A methylation regulators in uveal melanoma (UM). Methods The RNA sequencing dataset and corresponding clinical information were downloaded from TCGA and GEO database. Based on the expression of m6A RNA methylation regulators, the patients were further clustered into different groups by applying the “ClassDiscovery” algorithm. Best survival analysis was performed to select prognostic m6A regulators and multivariate cox regression analysis was applied to constructed m6A regulators signature. The association between mutations and m6A regulators was assessed by Kruskal−Wallis tests and clinical characteristics were examined by using chi-square test. Results Totally, we identified two molecular subtypes of UM (C1/2) by applying consensus clustering to m6A RNA methylation regulators. In contrast to the C1 subtype, the C2 subtype associates with a better prognosis, has higher percentage of subtype 1 and lower percentage of Monosomy 3 which have been regarded as the well established prognostic markers for UM. The malignant hallmarks of mTORC1 signaling, oxidative phosphorylation, interferon-a response and apoptosis signaling are also significantly enriched in the C1 subtype. Moreover, a 3-m6A regulators signature was constructed by multivariate cox regression analysis method, which closely correlated with chromosome 3 status, subtype 1 of UM and can robustly predict patients’ overall survival time. Conclusions m6A RNA methylation regulators take a crucial role in the potential malignant progression and prognostic value of UM and might be regarded as a new promising biomarker for UM prognosis and treatment strategy development. |
| first_indexed | 2024-12-12T06:51:30Z |
| format | Article |
| id | doaj.art-ba5f202374c54cbc856da676757fa900 |
| institution | Directory Open Access Journal |
| issn | 1471-2407 |
| language | English |
| last_indexed | 2024-12-12T06:51:30Z |
| publishDate | 2020-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Cancer |
| spelling | doaj.art-ba5f202374c54cbc856da676757fa9002022-12-22T00:34:04ZengBMCBMC Cancer1471-24072020-07-0120111310.1186/s12885-020-07159-8The prognostic values of m6A RNA methylation regulators in uveal melanomaJing Tang0Qi Wan1Jianqun Lu2Department of Ophthalmology, The People’s Hospital of LeshanDepartment of Ophthalmology, The People’s Hospital of LeshanDepartment of Ophthalmology, The People’s Hospital of LeshanAbstract Background The aim of this study was to identify gene signatures and prognostic values of m6A methylation regulators in uveal melanoma (UM). Methods The RNA sequencing dataset and corresponding clinical information were downloaded from TCGA and GEO database. Based on the expression of m6A RNA methylation regulators, the patients were further clustered into different groups by applying the “ClassDiscovery” algorithm. Best survival analysis was performed to select prognostic m6A regulators and multivariate cox regression analysis was applied to constructed m6A regulators signature. The association between mutations and m6A regulators was assessed by Kruskal−Wallis tests and clinical characteristics were examined by using chi-square test. Results Totally, we identified two molecular subtypes of UM (C1/2) by applying consensus clustering to m6A RNA methylation regulators. In contrast to the C1 subtype, the C2 subtype associates with a better prognosis, has higher percentage of subtype 1 and lower percentage of Monosomy 3 which have been regarded as the well established prognostic markers for UM. The malignant hallmarks of mTORC1 signaling, oxidative phosphorylation, interferon-a response and apoptosis signaling are also significantly enriched in the C1 subtype. Moreover, a 3-m6A regulators signature was constructed by multivariate cox regression analysis method, which closely correlated with chromosome 3 status, subtype 1 of UM and can robustly predict patients’ overall survival time. Conclusions m6A RNA methylation regulators take a crucial role in the potential malignant progression and prognostic value of UM and might be regarded as a new promising biomarker for UM prognosis and treatment strategy development.http://link.springer.com/article/10.1186/s12885-020-07159-8Uveal melanomam6A regulatorsbiomarkerSurvival analysis |
| spellingShingle | Jing Tang Qi Wan Jianqun Lu The prognostic values of m6A RNA methylation regulators in uveal melanoma BMC Cancer Uveal melanoma m6A regulators biomarker Survival analysis |
| title | The prognostic values of m6A RNA methylation regulators in uveal melanoma |
| title_full | The prognostic values of m6A RNA methylation regulators in uveal melanoma |
| title_fullStr | The prognostic values of m6A RNA methylation regulators in uveal melanoma |
| title_full_unstemmed | The prognostic values of m6A RNA methylation regulators in uveal melanoma |
| title_short | The prognostic values of m6A RNA methylation regulators in uveal melanoma |
| title_sort | prognostic values of m6a rna methylation regulators in uveal melanoma |
| topic | Uveal melanoma m6A regulators biomarker Survival analysis |
| url | http://link.springer.com/article/10.1186/s12885-020-07159-8 |
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