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The prognostic values of m6A RNA methylation regulators in uveal melanoma
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 meth...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7368742/ https://www.ncbi.nlm.nih.gov/pubmed/32682400 http://dx.doi.org/10.1186/s12885-020-07159-8 |
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author | Tang, Jing Wan, Qi Lu, Jianqun |
author_facet | Tang, Jing Wan, Qi Lu, Jianqun |
author_sort | Tang, Jing |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-7368742 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-73687422020-07-20 The prognostic values of m6A RNA methylation regulators in uveal melanoma Tang, Jing Wan, Qi Lu, Jianqun BMC Cancer Research Article 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. BioMed Central 2020-07-18 /pmc/articles/PMC7368742/ /pubmed/32682400 http://dx.doi.org/10.1186/s12885-020-07159-8 Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Article Tang, Jing Wan, Qi Lu, Jianqun The prognostic values of m6A RNA methylation regulators in uveal melanoma |
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 | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7368742/ https://www.ncbi.nlm.nih.gov/pubmed/32682400 http://dx.doi.org/10.1186/s12885-020-07159-8 |
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