Cargando…

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...

Descripción completa

Detalles Bibliográficos
Autores principales: Liang, Ying, Song, Jukun, He, Dengqi, Xia, Yu, Wu, Yadong, Yin, Xinhai, Liu, Jianguo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2019
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
_version_ 1783433849696419840
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
work_keys_str_mv AT liangying systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer
AT songjukun systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer
AT hedengqi systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer
AT xiayu systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer
AT wuyadong systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer
AT yinxinhai systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer
AT liujianguo systematicanalysisofsurvivalassociatedalternativesplicingsignaturesuncoversprognosticpredictorsforheadandneckcancer