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Identification and validation of candidate biomarkers in oral squamous cell carcinoma by whole-transcriptome sequencing and RT-qPCR, with exploratory CT radiomics analysis
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Y. Zhang   , X. Li , P. Ha , G. Zhang , Y. Wang , R. Gao , Z. Wei , C. Yin |
| College of Medical Technology, Chongqing Three Gorges Medical College, Chongqing, China , ZYL6892@163.com |
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Abstract: (10 Views) |
Background: Oral squamous cell carcinoma (OSCC) is frequently diagnosed at advanced stages, and reliable noninvasive biomarkers remain limited. Transcriptomic profiling and CT-based radiomics are increasingly used to characterize tumor heterogeneity and may provide complementary molecular and imaging information in OSCC. Materials and Methods: Transcriptome sequencing was performed on three paired OSCC and adjacent normal tissues to identify differentially expressed genes (DEGs), followed by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses. Fifteen additional paired samples were used for validation by real-time quantitative polymerase chain reaction (RT-qPCR). In a separate exploratory subanalysis, preoperative contrast-enhanced CT images from OSCC patients were manually segmented, and radiomic features were extracted to assess potential radiogenomic associations. Results: A total of 832 DEGs were identified, including 416 upregulated and 416 downregulated genes. Enrichment analyses showed that DEGs were mainly involved in cell cycle- and salivary secretion-related pathways. RT-qPCR confirmed significant differential expression of AQP5, LYZ, STATH, CDC7, and MCM5 (all P < 0.05), whereas CCND2 and E2F1 were not significant (both P > 0.05); exact P values are provided in the Results section and tables. In the exploratory CT analysis, high CDC7 expression was associated with irregular tumor margins and lymph node metastasis. Conclusion: AQP5, LYZ, STATH, CDC7, and MCM5 may serve as candidate biomarkers for OSCC. Exploratory CT radiomics findings suggest that imaging phenotypes may provide complementary information for molecular stratification, but these associations require validation in larger cohorts. |
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| Keywords: Mouth neoplasms, squamous cell carcinoma of head and neck, biomarkers, tomography, x-ray computed, radiomics. |
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Full-Text [PDF 1197 kb]
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Type of Study: Original Research |
Subject:
Radiation Biology
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