A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma

Abstract Nasopharyngeal carcinoma (NPC) is a rare malignancy, with the unique geographical and ethnically characteristics of distribution. Gene chip and bioinformatics have been employed to reveal regulatory mechanisms in current functional genomics. However, a practical solution addressing the unre...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Chengyou Liu, Peijie Guo, Leilei Zhou, Yuhe Wang, Shuchang Tian, Yong Ding, Jing Wu, Junlin Zhu, Yu Wang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/37149d2714424254b01ffbf7dea091d3
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:37149d2714424254b01ffbf7dea091d3
record_format	dspace
spelling	oai:doaj.org-article:37149d2714424254b01ffbf7dea091d32021-12-02T13:26:32ZA practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma10.1038/s41598-021-86809-82045-2322https://doaj.org/article/37149d2714424254b01ffbf7dea091d32021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-86809-8https://doaj.org/toc/2045-2322Abstract Nasopharyngeal carcinoma (NPC) is a rare malignancy, with the unique geographical and ethnically characteristics of distribution. Gene chip and bioinformatics have been employed to reveal regulatory mechanisms in current functional genomics. However, a practical solution addressing the unresolved aspects of microarray data processing and analysis have been long pursuit. This study developed a new method to improve the accuracy of identifying key biomarkers, namely Unit Gamma Measurement (UGM), accounting for multiple hypotheses test statistics distribution, which could reduce the dependency problem. Three mRNA expression profile of NPC were selected to feed UGM. Differentially expressed genes (DEGs) were identified with UGM and hub genes were derived from them to explore their association with NPC using functional enrichment and pathway analysis. 47 potential DEGs were identified by UGM from the 3 selected datasets, and affluent in cysteine-type endopeptidase inhibitor activity, cilium movement, extracellular exosome etc. also participate in ECM-receptor interaction, chemical carcinogenesis, TNF signaling pathway, small cell lung cancer and mismatch repair pathway. Down-regulation of CAPS and WFDC2 can prolongation of the overall survival periods in the patients. ARMC4, SERPINB3, MUC4 etc. have a close relationship with NPC. The UGM is a practical method to identify NPC-associated genes and biomarkers.Chengyou LiuPeijie GuoLeilei ZhouYuhe WangShuchang TianYong DingJing WuJunlin ZhuYu WangNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Chengyou Liu Peijie Guo Leilei Zhou Yuhe Wang Shuchang Tian Yong Ding Jing Wu Junlin Zhu Yu Wang A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
description	Abstract Nasopharyngeal carcinoma (NPC) is a rare malignancy, with the unique geographical and ethnically characteristics of distribution. Gene chip and bioinformatics have been employed to reveal regulatory mechanisms in current functional genomics. However, a practical solution addressing the unresolved aspects of microarray data processing and analysis have been long pursuit. This study developed a new method to improve the accuracy of identifying key biomarkers, namely Unit Gamma Measurement (UGM), accounting for multiple hypotheses test statistics distribution, which could reduce the dependency problem. Three mRNA expression profile of NPC were selected to feed UGM. Differentially expressed genes (DEGs) were identified with UGM and hub genes were derived from them to explore their association with NPC using functional enrichment and pathway analysis. 47 potential DEGs were identified by UGM from the 3 selected datasets, and affluent in cysteine-type endopeptidase inhibitor activity, cilium movement, extracellular exosome etc. also participate in ECM-receptor interaction, chemical carcinogenesis, TNF signaling pathway, small cell lung cancer and mismatch repair pathway. Down-regulation of CAPS and WFDC2 can prolongation of the overall survival periods in the patients. ARMC4, SERPINB3, MUC4 etc. have a close relationship with NPC. The UGM is a practical method to identify NPC-associated genes and biomarkers.
format	article
author	Chengyou Liu Peijie Guo Leilei Zhou Yuhe Wang Shuchang Tian Yong Ding Jing Wu Junlin Zhu Yu Wang
author_facet	Chengyou Liu Peijie Guo Leilei Zhou Yuhe Wang Shuchang Tian Yong Ding Jing Wu Junlin Zhu Yu Wang
author_sort	Chengyou Liu
title	A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
title_short	A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
title_full	A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
title_fullStr	A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
title_full_unstemmed	A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
title_sort	practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/37149d2714424254b01ffbf7dea091d3
work_keys_str_mv	AT chengyouliu apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT peijieguo apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT leileizhou apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT yuhewang apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT shuchangtian apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT yongding apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT jingwu apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT junlinzhu apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT yuwang apracticalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT chengyouliu practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT peijieguo practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT leileizhou practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT yuhewang practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT shuchangtian practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT yongding practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT jingwu practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT junlinzhu practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma AT yuwang practicalmethodtoscreenandidentifyfunctioningbiomarkersinnasopharyngealcarcinoma
_version_	1718393023028527104

A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma

Ejemplares similares