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Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer
BACKGROUND: Previous studies have shown that alternative splicing (AS) plays a key role in carcinogenesis and prognosis of cancer. However, systematic profiles of AS signatures in head and neck cancer (HNC) have not yet been reported. METHODS: In this study, AS data, RNA‐Seq data, and corresponding c...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6618130/ https://www.ncbi.nlm.nih.gov/pubmed/30740675 http://dx.doi.org/10.1002/jcp.28241 |
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author | Liang, Ying Song, Jukun He, Dengqi Xia, Yu Wu, Yadong Yin, Xinhai Liu, Jianguo |
author_facet | Liang, Ying Song, Jukun He, Dengqi Xia, Yu Wu, Yadong Yin, Xinhai Liu, Jianguo |
author_sort | Liang, Ying |
collection | PubMed |
description | BACKGROUND: Previous studies have shown that alternative splicing (AS) plays a key role in carcinogenesis and prognosis of cancer. However, systematic profiles of AS signatures in head and neck cancer (HNC) have not yet been reported. METHODS: In this study, AS data, RNA‐Seq data, and corresponding clinicopathological information of 489 HNC patients were downloaded from The Cancer Genome Atlas. Univariate and multivariate Cox regression analyses were performed to screen for survival‐associated AS events. Functional and pathway enrichment analysis was also performed. The prognostic models and splicing networks were constructed using integrated bioinformatics analysis tools. RESULTS: Among the 42,849 alternating splicing events identified in 10,121 genes, 5,165 survival‐associated AS events in 2,419 genes were observed in univariate Cox regression analysis. Among the seven types, alternate terminator events were the most powerful prognostic factors. Multivariate Cox analysis was then used to screen for the AS genes with prognostic value. Four candidate genes (TPM1, CLASRP, PRRC1, and DNASE1L1) were found to be independent prognostic factors for HNC patients. A prognostic prediction model was built based on the four genes. The area under the receiver operating characteristic risk score curve for predicting the survival status of HNC patients was 0.704. In addition, splicing interaction network indicated that the splicing factors have significant functions in HNC. CONCLUSION: A comprehensive analysis of AS events in HNC was performed. A powerful prognostic predictor for HNC patients was established based on AS events could. |
format | Online Article Text |
id | pubmed-6618130 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-66181302019-07-22 Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer Liang, Ying Song, Jukun He, Dengqi Xia, Yu Wu, Yadong Yin, Xinhai Liu, Jianguo J Cell Physiol Original Research Articles BACKGROUND: Previous studies have shown that alternative splicing (AS) plays a key role in carcinogenesis and prognosis of cancer. However, systematic profiles of AS signatures in head and neck cancer (HNC) have not yet been reported. METHODS: In this study, AS data, RNA‐Seq data, and corresponding clinicopathological information of 489 HNC patients were downloaded from The Cancer Genome Atlas. Univariate and multivariate Cox regression analyses were performed to screen for survival‐associated AS events. Functional and pathway enrichment analysis was also performed. The prognostic models and splicing networks were constructed using integrated bioinformatics analysis tools. RESULTS: Among the 42,849 alternating splicing events identified in 10,121 genes, 5,165 survival‐associated AS events in 2,419 genes were observed in univariate Cox regression analysis. Among the seven types, alternate terminator events were the most powerful prognostic factors. Multivariate Cox analysis was then used to screen for the AS genes with prognostic value. Four candidate genes (TPM1, CLASRP, PRRC1, and DNASE1L1) were found to be independent prognostic factors for HNC patients. A prognostic prediction model was built based on the four genes. The area under the receiver operating characteristic risk score curve for predicting the survival status of HNC patients was 0.704. In addition, splicing interaction network indicated that the splicing factors have significant functions in HNC. CONCLUSION: A comprehensive analysis of AS events in HNC was performed. A powerful prognostic predictor for HNC patients was established based on AS events could. John Wiley and Sons Inc. 2019-02-10 2019-09 /pmc/articles/PMC6618130/ /pubmed/30740675 http://dx.doi.org/10.1002/jcp.28241 Text en © 2019 The Authors. Journal of Cellular Physiology Published by Wiley Periodicals, Inc. This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc-nd/4.0/ License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made. |
spellingShingle | Original Research Articles Liang, Ying Song, Jukun He, Dengqi Xia, Yu Wu, Yadong Yin, Xinhai Liu, Jianguo Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
title | Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
title_full | Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
title_fullStr | Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
title_full_unstemmed | Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
title_short | Systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
title_sort | systematic analysis of survival‐associated alternative splicing signatures uncovers prognostic predictors for head and neck cancer |
topic | Original Research Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6618130/ https://www.ncbi.nlm.nih.gov/pubmed/30740675 http://dx.doi.org/10.1002/jcp.28241 |
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