A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data
Aim: Head and Neck squamous cell carcinoma (HNSCC) is the second most prevalent cancer in Pakistan. Methods: Gene expression data from TCGA and GETx for normal genes to analyze Differentially Expressed Genes (DEGs). Data was further investigated using the Enrichr tool to perform Gene Ontology (GO)....
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| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2024-12-01
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| Series: | Future Science OA |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/20565623.2024.2380590 |
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| author | Saqib Rauf Sami Ullah Muhammad Adil Abid Asad Ullah Gullzar Khan Ainee Urooj Khan Gulzar Ahmad Muhammad Ijaz Sidra Ahmad Sulaiman Faisal |
| author_facet | Saqib Rauf Sami Ullah Muhammad Adil Abid Asad Ullah Gullzar Khan Ainee Urooj Khan Gulzar Ahmad Muhammad Ijaz Sidra Ahmad Sulaiman Faisal |
| author_sort | Saqib Rauf |
| collection | DOAJ |
| description | Aim: Head and Neck squamous cell carcinoma (HNSCC) is the second most prevalent cancer in Pakistan. Methods: Gene expression data from TCGA and GETx for normal genes to analyze Differentially Expressed Genes (DEGs). Data was further investigated using the Enrichr tool to perform Gene Ontology (GO). Results: Our analysis identified most significantly differentially expressed genes and explored their established cellular functions as well as their potential involvement in tumor development. We found that the highly expressed Keratin family and S100A9 genes. The under-expressed genes KRT4 and KRT13 provide instructions for the production of keratin proteins. Conclusion: Our study suggests that factors such as poor oral hygiene and smokeless tobacco can result in oral stress and cellular damage and cause cancer. |
| format | Article |
| id | doaj-art-804f9fa78ec04d07820891f33f1a3e95 |
| institution | DOAJ |
| issn | 2056-5623 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Future Science OA |
| spelling | doaj-art-804f9fa78ec04d07820891f33f1a3e952025-08-20T03:13:04ZengTaylor & Francis GroupFuture Science OA2056-56232024-12-0110110.1080/20565623.2024.2380590A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA dataSaqib Rauf0Sami Ullah1Muhammad Adil Abid2Asad Ullah3Gullzar Khan4Ainee Urooj Khan5Gulzar Ahmad6Muhammad Ijaz7Sidra Ahmad8Sulaiman Faisal9Institute of Integrative Biosciences, CECOS University Peshawar, 25000, PakistanCentre for Omics Sciences, Islamia College Peshawar, 25000, PakistanCentre for Omics Sciences, Islamia College Peshawar, 25000, PakistanInstitute of Biotechnology & Genetic Engineering, University of Agriculture Peshawar, 25000, PakistanCentre for Omics Sciences, Islamia College Peshawar, 25000, PakistanInstitute of Integrative Biosciences, CECOS University Peshawar, 25000, PakistanInstitute of Biotechnology & Genetic Engineering, University of Agriculture Peshawar, 25000, PakistanInstitute of Integrative Biosciences, CECOS University Peshawar, 25000, PakistanInstitute of Biotechnology & Genetic Engineering, University of Agriculture Peshawar, 25000, PakistanInstitute of Integrative Biosciences, CECOS University Peshawar, 25000, PakistanAim: Head and Neck squamous cell carcinoma (HNSCC) is the second most prevalent cancer in Pakistan. Methods: Gene expression data from TCGA and GETx for normal genes to analyze Differentially Expressed Genes (DEGs). Data was further investigated using the Enrichr tool to perform Gene Ontology (GO). Results: Our analysis identified most significantly differentially expressed genes and explored their established cellular functions as well as their potential involvement in tumor development. We found that the highly expressed Keratin family and S100A9 genes. The under-expressed genes KRT4 and KRT13 provide instructions for the production of keratin proteins. Conclusion: Our study suggests that factors such as poor oral hygiene and smokeless tobacco can result in oral stress and cellular damage and cause cancer.https://www.tandfonline.com/doi/10.1080/20565623.2024.2380590Big DataDEGGene OntologyHNSCCKRT13TCGA |
| spellingShingle | Saqib Rauf Sami Ullah Muhammad Adil Abid Asad Ullah Gullzar Khan Ainee Urooj Khan Gulzar Ahmad Muhammad Ijaz Sidra Ahmad Sulaiman Faisal A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data Future Science OA Big Data DEG Gene Ontology HNSCC KRT13 TCGA |
| title | A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data |
| title_full | A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data |
| title_fullStr | A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data |
| title_full_unstemmed | A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data |
| title_short | A computational study of gene expression patterns in head and neck squamous cell carcinoma using TCGA data |
| title_sort | computational study of gene expression patterns in head and neck squamous cell carcinoma using tcga data |
| topic | Big Data DEG Gene Ontology HNSCC KRT13 TCGA |
| url | https://www.tandfonline.com/doi/10.1080/20565623.2024.2380590 |
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