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


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, Differential gene expression and network analysis in head and neck squamous cell carcinoma, Molecular and Cellular Biochemistry, 477, (5) pp. 1361-1370. ISSN 0300-8177 (2022) [Refereed Article]

Copyright Statement

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

DOI: doi:10.1007/s11010-022-04379-3


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 protein–protein 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 Kaplan–Meier 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 Details

Item Type:Refereed Article
Keywords:squamous cell carcinoma, lung cancer, head and neck cancer, epithelium, lung
Research Division:Biomedical and Clinical Sciences
Research Group:Cardiovascular medicine and haematology
Research Field:Cardiology (incl. cardiovascular diseases)
Objective Division:Health
Objective Group:Clinical health
Objective Field:Diagnosis of human diseases and conditions
UTAS Author:Sohal, SS (Dr Sukhwinder Sohal)
ID Code:148829
Year Published:2022
Deposited By:Health Sciences
Deposited On:2022-02-15
Last Modified:2022-12-15

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