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Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma
BACKGROUND: Cutaneous squamous cell carcinoma (cSCC) often follows actinic keratosis (AK) and is the second most common skin cancer worldwide. To reduce metastasis risk, it is important to diagnose and treat cSCC early. This study aimed to identify hub genes associated with cSCC and AK. METHODS: Thi...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8306372/ https://www.ncbi.nlm.nih.gov/pubmed/34301206 http://dx.doi.org/10.1186/s12885-021-08604-y |
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author | Chen, Huizhen Yang, Jiankang Wu, Wenjuan |
author_facet | Chen, Huizhen Yang, Jiankang Wu, Wenjuan |
author_sort | Chen, Huizhen |
collection | PubMed |
description | BACKGROUND: Cutaneous squamous cell carcinoma (cSCC) often follows actinic keratosis (AK) and is the second most common skin cancer worldwide. To reduce metastasis risk, it is important to diagnose and treat cSCC early. This study aimed to identify hub genes associated with cSCC and AK. METHODS: This study used three datasets GSE45216, GSE98774, and GSE108008. We combined samples from the GSE45216 and GSE98774 datasets into the new dataset GSE45216–98774. We applied a weighted gene co-expression network analysis (WGCNA) to investigate key modules and hub genes associated with cSCC and AK. We considered the hub genes found in both the GSE45216–98774 and GSE108008 datasets as validated hub genes. We tested whether the expression of hub genes could predict patient survival outcomes in other cancers using TCGA pan-cancer data. RESULTS: We identified modules most relevant to cSCC and AK. Additionally, we identified and validated seven hub genes of cSCC: GATM, ARHGEF26, PTHLH, MMP1, POU2F3, MMP10 and GATA3. We did not find validated hub genes for AK. Each hub gene was significantly associated with the survival of various cancer types. Only GATA3 was significantly associated with melanoma survival. CONCLUSIONS: We applied WGCNA to find seven hub genes that play important roles in cSCC tumorigenesis. These results provide new insights that help explain the pathogenesis of cSCC. These hub genes may become biomarkers or therapeutic targets for accurate diagnosis and treatment of cSCC in the future. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12885-021-08604-y. |
format | Online Article Text |
id | pubmed-8306372 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-83063722021-07-28 Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma Chen, Huizhen Yang, Jiankang Wu, Wenjuan BMC Cancer Research Article BACKGROUND: Cutaneous squamous cell carcinoma (cSCC) often follows actinic keratosis (AK) and is the second most common skin cancer worldwide. To reduce metastasis risk, it is important to diagnose and treat cSCC early. This study aimed to identify hub genes associated with cSCC and AK. METHODS: This study used three datasets GSE45216, GSE98774, and GSE108008. We combined samples from the GSE45216 and GSE98774 datasets into the new dataset GSE45216–98774. We applied a weighted gene co-expression network analysis (WGCNA) to investigate key modules and hub genes associated with cSCC and AK. We considered the hub genes found in both the GSE45216–98774 and GSE108008 datasets as validated hub genes. We tested whether the expression of hub genes could predict patient survival outcomes in other cancers using TCGA pan-cancer data. RESULTS: We identified modules most relevant to cSCC and AK. Additionally, we identified and validated seven hub genes of cSCC: GATM, ARHGEF26, PTHLH, MMP1, POU2F3, MMP10 and GATA3. We did not find validated hub genes for AK. Each hub gene was significantly associated with the survival of various cancer types. Only GATA3 was significantly associated with melanoma survival. CONCLUSIONS: We applied WGCNA to find seven hub genes that play important roles in cSCC tumorigenesis. These results provide new insights that help explain the pathogenesis of cSCC. These hub genes may become biomarkers or therapeutic targets for accurate diagnosis and treatment of cSCC in the future. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12885-021-08604-y. BioMed Central 2021-07-23 /pmc/articles/PMC8306372/ /pubmed/34301206 http://dx.doi.org/10.1186/s12885-021-08604-y Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Article Chen, Huizhen Yang, Jiankang Wu, Wenjuan Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
title | Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
title_full | Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
title_fullStr | Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
title_full_unstemmed | Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
title_short | Seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
title_sort | seven key hub genes identified by gene co-expression network in cutaneous squamous cell carcinoma |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8306372/ https://www.ncbi.nlm.nih.gov/pubmed/34301206 http://dx.doi.org/10.1186/s12885-021-08604-y |
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