Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas

Squamous cell carcinoma of the head and neck (SCCHN) is common worldwide and related to several risk factors including smoking, alcohol consumption, poor dentition and human papillomavirus (HPV) infection. Different etiological factors may influence the tumor microenvironment and play a role in dict...

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Autores principales:	Yuri Belotti, Su Bin Lim, Narayanan Gopalakrishna Iyer, Wan-Teck Lim, Chwee Teck Lim
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	extracellular matrix head and neck cancer bioinformatics TCGA HPV prognostic biomarker Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282
Acceso en línea:	https://doaj.org/article/bb1532e635c5423f9e54435788fda483
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spelling	oai:doaj.org-article:bb1532e635c5423f9e54435788fda4832021-11-25T17:03:38ZPrognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas10.3390/cancers132257612072-6694https://doaj.org/article/bb1532e635c5423f9e54435788fda4832021-11-01T00:00:00Zhttps://www.mdpi.com/2072-6694/13/22/5761https://doaj.org/toc/2072-6694Squamous cell carcinoma of the head and neck (SCCHN) is common worldwide and related to several risk factors including smoking, alcohol consumption, poor dentition and human papillomavirus (HPV) infection. Different etiological factors may influence the tumor microenvironment and play a role in dictating response to therapeutics. Here, we sought to investigate whether an early-stage SCCHN-specific prognostic matrisome-derived gene signature could be identified for HPV-negative SCCHN patients (<i>n</i> = 168), by applying a bioinformatics pipeline to the publicly available SCCHN-TCGA dataset. We identified six matrisome-derived genes with high association with prognostic outcomes in SCCHN. A six-gene risk score, the SCCHN TMI (SCCHN-tumor matrisome index: composed of MASP1, EGFL6, SFRP5, SPP1, MMP8 and P4HA1) was constructed and used to stratify patients into risk groups. Using machine learning-based deconvolution methods, we found that the risk groups were characterized by a differing abundance of infiltrating immune cells. This work highlights the key role of immune infiltration cells in the overall survival of patients affected by HPV-negative SCCHN. The identified SCCHN TMI represents a genomic tool that could potentially aid patient stratification and selection for therapy in these patients.Yuri BelottiSu Bin LimNarayanan Gopalakrishna IyerWan-Teck LimChwee Teck LimMDPI AGarticleextracellular matrixhead and neck cancerbioinformaticsTCGAHPVprognostic biomarkerNeoplasms. Tumors. Oncology. Including cancer and carcinogensRC254-282ENCancers, Vol 13, Iss 5761, p 5761 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	extracellular matrix head and neck cancer bioinformatics TCGA HPV prognostic biomarker Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282
spellingShingle	extracellular matrix head and neck cancer bioinformatics TCGA HPV prognostic biomarker Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 Yuri Belotti Su Bin Lim Narayanan Gopalakrishna Iyer Wan-Teck Lim Chwee Teck Lim Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas
description	Squamous cell carcinoma of the head and neck (SCCHN) is common worldwide and related to several risk factors including smoking, alcohol consumption, poor dentition and human papillomavirus (HPV) infection. Different etiological factors may influence the tumor microenvironment and play a role in dictating response to therapeutics. Here, we sought to investigate whether an early-stage SCCHN-specific prognostic matrisome-derived gene signature could be identified for HPV-negative SCCHN patients (<i>n</i> = 168), by applying a bioinformatics pipeline to the publicly available SCCHN-TCGA dataset. We identified six matrisome-derived genes with high association with prognostic outcomes in SCCHN. A six-gene risk score, the SCCHN TMI (SCCHN-tumor matrisome index: composed of MASP1, EGFL6, SFRP5, SPP1, MMP8 and P4HA1) was constructed and used to stratify patients into risk groups. Using machine learning-based deconvolution methods, we found that the risk groups were characterized by a differing abundance of infiltrating immune cells. This work highlights the key role of immune infiltration cells in the overall survival of patients affected by HPV-negative SCCHN. The identified SCCHN TMI represents a genomic tool that could potentially aid patient stratification and selection for therapy in these patients.
format	article
author	Yuri Belotti Su Bin Lim Narayanan Gopalakrishna Iyer Wan-Teck Lim Chwee Teck Lim
author_facet	Yuri Belotti Su Bin Lim Narayanan Gopalakrishna Iyer Wan-Teck Lim Chwee Teck Lim
author_sort	Yuri Belotti
title	Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas
title_short	Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas
title_full	Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas
title_fullStr	Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas
title_full_unstemmed	Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas
title_sort	prognostic matrisomal gene panel and its association with immune cell infiltration in head and neck carcinomas
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/bb1532e635c5423f9e54435788fda483
work_keys_str_mv	AT yuribelotti prognosticmatrisomalgenepanelanditsassociationwithimmunecellinfiltrationinheadandneckcarcinomas AT subinlim prognosticmatrisomalgenepanelanditsassociationwithimmunecellinfiltrationinheadandneckcarcinomas AT narayanangopalakrishnaiyer prognosticmatrisomalgenepanelanditsassociationwithimmunecellinfiltrationinheadandneckcarcinomas AT wantecklim prognosticmatrisomalgenepanelanditsassociationwithimmunecellinfiltrationinheadandneckcarcinomas AT chweetecklim prognosticmatrisomalgenepanelanditsassociationwithimmunecellinfiltrationinheadandneckcarcinomas
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Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas

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