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A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables

Abundant evidence has indicated that the prognosis of cutaneous melanoma (CM) patients is highly complicated by the tumour immune microenvironment. We retrieved the clinical data and gene expression data of CM patients in The Cancer Genome Atlas (TCGA) database for modelling and validation analysis....

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Autores principales: Tang, Yifan, Feng, Huicong, Zhang, Lupeng, Qu, Chiwen, Li, Jinlong, Deng, Xiangyu, Zhong, Suye, Yang, Jun, Deng, Xiyun, Zeng, Xiaomin, Wang, Yiren, Peng, Xiaoning
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9701680/
https://www.ncbi.nlm.nih.gov/pubmed/36437242
http://dx.doi.org/10.1038/s41598-022-23475-4
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author Tang, Yifan
Feng, Huicong
Zhang, Lupeng
Qu, Chiwen
Li, Jinlong
Deng, Xiangyu
Zhong, Suye
Yang, Jun
Deng, Xiyun
Zeng, Xiaomin
Wang, Yiren
Peng, Xiaoning
author_facet Tang, Yifan
Feng, Huicong
Zhang, Lupeng
Qu, Chiwen
Li, Jinlong
Deng, Xiangyu
Zhong, Suye
Yang, Jun
Deng, Xiyun
Zeng, Xiaomin
Wang, Yiren
Peng, Xiaoning
author_sort Tang, Yifan
collection PubMed
description Abundant evidence has indicated that the prognosis of cutaneous melanoma (CM) patients is highly complicated by the tumour immune microenvironment. We retrieved the clinical data and gene expression data of CM patients in The Cancer Genome Atlas (TCGA) database for modelling and validation analysis. Based on single-sample gene set enrichment analysis (ssGSEA) and consensus clustering analysis, CM patients were classified into three immune level groups, and the differences in the tumour immune microenvironment and clinical characteristics were evaluated. Seven immune-related CM prognostic molecules, including three mRNAs (SUCO, BTN3A1 and TBC1D2), three lncRNAs (HLA-DQB1-AS1, C9orf139 and C22orf34) and one miRNA (hsa-miR-17-5p), were screened by differential expression analysis, ceRNA network analysis, LASSO Cox regression analysis and univariate Cox regression analysis. Their biological functions were mainly concentrated in the phospholipid metabolic process, transcription regulator complex, protein serine/threonine kinase activity and MAPK signalling pathway. We established a novel prognostic model for CM integrating clinical variables and immune molecules that showed promising predictive performance demonstrated by receiver operating characteristic curves (AUC ≥ 0.74), providing a scientific basis for predicting the prognosis and improving the clinical outcomes of CM patients.
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spelling pubmed-97016802022-11-29 A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables Tang, Yifan Feng, Huicong Zhang, Lupeng Qu, Chiwen Li, Jinlong Deng, Xiangyu Zhong, Suye Yang, Jun Deng, Xiyun Zeng, Xiaomin Wang, Yiren Peng, Xiaoning Sci Rep Article Abundant evidence has indicated that the prognosis of cutaneous melanoma (CM) patients is highly complicated by the tumour immune microenvironment. We retrieved the clinical data and gene expression data of CM patients in The Cancer Genome Atlas (TCGA) database for modelling and validation analysis. Based on single-sample gene set enrichment analysis (ssGSEA) and consensus clustering analysis, CM patients were classified into three immune level groups, and the differences in the tumour immune microenvironment and clinical characteristics were evaluated. Seven immune-related CM prognostic molecules, including three mRNAs (SUCO, BTN3A1 and TBC1D2), three lncRNAs (HLA-DQB1-AS1, C9orf139 and C22orf34) and one miRNA (hsa-miR-17-5p), were screened by differential expression analysis, ceRNA network analysis, LASSO Cox regression analysis and univariate Cox regression analysis. Their biological functions were mainly concentrated in the phospholipid metabolic process, transcription regulator complex, protein serine/threonine kinase activity and MAPK signalling pathway. We established a novel prognostic model for CM integrating clinical variables and immune molecules that showed promising predictive performance demonstrated by receiver operating characteristic curves (AUC ≥ 0.74), providing a scientific basis for predicting the prognosis and improving the clinical outcomes of CM patients. Nature Publishing Group UK 2022-11-27 /pmc/articles/PMC9701680/ /pubmed/36437242 http://dx.doi.org/10.1038/s41598-022-23475-4 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This 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/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Tang, Yifan
Feng, Huicong
Zhang, Lupeng
Qu, Chiwen
Li, Jinlong
Deng, Xiangyu
Zhong, Suye
Yang, Jun
Deng, Xiyun
Zeng, Xiaomin
Wang, Yiren
Peng, Xiaoning
A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
title A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
title_full A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
title_fullStr A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
title_full_unstemmed A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
title_short A novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
title_sort novel prognostic model for cutaneous melanoma based on an immune-related gene signature and clinical variables
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9701680/
https://www.ncbi.nlm.nih.gov/pubmed/36437242
http://dx.doi.org/10.1038/s41598-022-23475-4
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