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Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma

Head and neck squamous carcinoma (HNSC) induces high cancer-related death worldwide. The biomarker screening on diagnosis and prognosis is of great importance. This research is aimed to explore the specific diagnostic and prognostic biomarkers for HNSC through bioinformatics analysis. The mutation a...

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Autores principales: Ju, Guoyuan, Yao, Zhangyu, Zhao, Yanbin, Zhao, Xiaotong, Liu, Fangzhou
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10282046/
https://www.ncbi.nlm.nih.gov/pubmed/37340028
http://dx.doi.org/10.1038/s41598-023-37216-8
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author Ju, Guoyuan
Yao, Zhangyu
Zhao, Yanbin
Zhao, Xiaotong
Liu, Fangzhou
author_facet Ju, Guoyuan
Yao, Zhangyu
Zhao, Yanbin
Zhao, Xiaotong
Liu, Fangzhou
author_sort Ju, Guoyuan
collection PubMed
description Head and neck squamous carcinoma (HNSC) induces high cancer-related death worldwide. The biomarker screening on diagnosis and prognosis is of great importance. This research is aimed to explore the specific diagnostic and prognostic biomarkers for HNSC through bioinformatics analysis. The mutation and dysregulation data were acquired from UCSC Xena and TCGA databases. The top ten genes with mutation frequency in HNSC were TP53 (66%), TTN (35%), FAT1 (21%), CDKN2A (20%), MUC16 (17%), CSMD3 (16%), PIK3CA (16%), NOTCH1 (16%), SYNE1 (15%), LRP1B (14%). A total of 1,060 DEGs were identified, with 396 up-regulated and 665 downregulated in HNSC patients. Patients with lower expression of ACTN2 (P = 0.039, HR = 1.3), MYH1 (P = 0.005, HR = 1.5), MYH2 (P = 0.035, HR = 1.3), MYH7 (P = 0.053, HR = 1.3), and NEB (P = 0.0043, HR = 1.5) exhibit longer overall survival time in HNSC patients. The main DEGs were further analyzed by pan-cancer expression and immune cell infiltration analyses. MYH1, MYH2, and MYH7 were dysregulated in the cancers. Compared with HNSC, their expression levels are lower in the other types of cancers. MYH1, MYH2, and MYH7 were expected to be the specific diagnostic and prognostic molecular biomarkers of HNSC. All five DEGs have a significant positive correlation with CD4+T cells and macrophages.
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spelling pubmed-102820462023-06-22 Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma Ju, Guoyuan Yao, Zhangyu Zhao, Yanbin Zhao, Xiaotong Liu, Fangzhou Sci Rep Article Head and neck squamous carcinoma (HNSC) induces high cancer-related death worldwide. The biomarker screening on diagnosis and prognosis is of great importance. This research is aimed to explore the specific diagnostic and prognostic biomarkers for HNSC through bioinformatics analysis. The mutation and dysregulation data were acquired from UCSC Xena and TCGA databases. The top ten genes with mutation frequency in HNSC were TP53 (66%), TTN (35%), FAT1 (21%), CDKN2A (20%), MUC16 (17%), CSMD3 (16%), PIK3CA (16%), NOTCH1 (16%), SYNE1 (15%), LRP1B (14%). A total of 1,060 DEGs were identified, with 396 up-regulated and 665 downregulated in HNSC patients. Patients with lower expression of ACTN2 (P = 0.039, HR = 1.3), MYH1 (P = 0.005, HR = 1.5), MYH2 (P = 0.035, HR = 1.3), MYH7 (P = 0.053, HR = 1.3), and NEB (P = 0.0043, HR = 1.5) exhibit longer overall survival time in HNSC patients. The main DEGs were further analyzed by pan-cancer expression and immune cell infiltration analyses. MYH1, MYH2, and MYH7 were dysregulated in the cancers. Compared with HNSC, their expression levels are lower in the other types of cancers. MYH1, MYH2, and MYH7 were expected to be the specific diagnostic and prognostic molecular biomarkers of HNSC. All five DEGs have a significant positive correlation with CD4+T cells and macrophages. Nature Publishing Group UK 2023-06-20 /pmc/articles/PMC10282046/ /pubmed/37340028 http://dx.doi.org/10.1038/s41598-023-37216-8 Text en © The Author(s) 2023 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
Ju, Guoyuan
Yao, Zhangyu
Zhao, Yanbin
Zhao, Xiaotong
Liu, Fangzhou
Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
title Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
title_full Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
title_fullStr Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
title_full_unstemmed Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
title_short Data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
title_sort data mining on identifying diagnosis and prognosis biomarkers in head and neck squamous carcinoma
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10282046/
https://www.ncbi.nlm.nih.gov/pubmed/37340028
http://dx.doi.org/10.1038/s41598-023-37216-8
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