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Differential gene expression and network analysis in head and neck squamous cell carcinoma

Habib, I, Anjum, F, Mohammad, T, Sulaimani, MN, Shafie, A, Almehmadi, M, Yadav, DK, Sohal, SS ORCID: 0000-0001-9627-6498 and Hassan, MI 2022 , 'Differential gene expression and network analysis in head and neck squamous cell carcinoma' , Molecular and Cellular Biochemistry , pp. 1-10 , doi: 10.1007/s11010-022-04379-3.

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Abstract

Head and neck squamous cell carcinoma (HNSCC) is a prevalent malignancy with a poor prognosis, whose biomarkers have not been studied in great detail. We have collected genomic data of HNSCC patients from The Cancer Genome Atlas (TCGA) and analyzed them to get deeper insights into the gene expression pattern. Initially, 793 differentially expressed genes (DEGs) were categorized, and their enrichment analysis was performed. Later, a proteinprotein interaction network for the DEGs was constructed using the STRING plugin in Cytoscape to study their interactions. A set of 10 hub genes was selected based on Maximal Clique Centrality score, and later their survival analysis was studied. The elucidated set of 10 genes, i.e., PRAME, MAGEC2, MAGEA12, LHX1, MAGEA3, CSAG1, MAGEA6, LCE6A, LCE2D, LCE2C, referred to as potential candidates to be explored as HNSCC biomarkers. The KaplanMeier overall survival of the selected genes suggested that the alterations in the candidate genes were linked to the decreased survival of the HNSCC patients. Altogether, the results of this study signify that the genomic alterations and differential expression of the selected genes can be explored in therapeutic interpolations of HNSCC, exploiting early diagnosis and target-propelled therapy.

Item Type: Article
Authors/Creators:Habib, I and Anjum, F and Mohammad, T and Sulaimani, MN and Shafie, A and Almehmadi, M and Yadav, DK and Sohal, SS and Hassan, MI
Keywords: squamous cell carcinoma, lung cancer, head and neck cancer, epithelium, lung
Journal or Publication Title: Molecular and Cellular Biochemistry
Publisher: Kluwer Academic Publ
ISSN: 0300-8177
DOI / ID Number: 10.1007/s11010-022-04379-3
Copyright Information:

© The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2022

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