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. 2021 Feb 1;22(2):371-380.
doi: 10.31557/APJCP.2021.22.2.371.

Transcriptional Biomarkers in Oral Cancer: An Integrative Analysis and the Cancer Genome Atlas Validation

Kinjal D Patel  1 , Hemangini H Vora  1 , Prabhudas S Patel  1
Affiliations

Transcriptional Biomarkers in Oral Cancer: An Integrative Analysis and the Cancer Genome Atlas Validation

Kinjal D Patel et al. Asian Pac J Cancer Prev. .

Abstract

Objective: An impervious mortality rate in oral cancer (OC) to a certain extent explains the exigencies of precise biomarkers. Therefore, the study was intended to identify OC candidate biomarkers using samples of healthy normal tissues (N=335), adjacent normal tissues (N=93) and OC tissues (N=533) from online microarray data.

Methods: Differentially expressed genes (DEGs) were recognised through GeneSpring software (Fold change >4.0 and 'p' value.

Keywords: Biomarkers; expression profiling by array; integrative analysis; oral cancer; the cancer genome atlas.

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Figures

Figure 1
Figure 1
The Basic Work-Flow Demonstrating the Integrative Analysis Study Design. DEGs, differentially expressed genes; DFS, disease-free survival; FC, fold change; FDR, false discovery rate; GEO, gene expression omnibus; GO, gene ontology; KEGG, kyoto encyclopedia of genes and genomes; OC, oral cancer; OS, overall survival; PCA, principal component analysis; PPI, protein-protein interaction; QC, quality control; RMA, robust multi-array analysis; TCGA, the cancer genome atlas
Figure 2
Figure 2
The Protein-Protein Interaction Network for Differentially Expressed Genes in Each Compared Groups: a. oral cancer tissues vs healthy normal tissues; b, oral cancer tissues vs adjacent normal tissues; and c, adjacent normal tissues vs healthy normal tissues
Figure 3
Figure 3
The Overlapping Differentially Expressed Genes three compared groups. a, up-regulated genes; b, down-regulated genes
Figure 4
Figure 4
Survival Analysis of Selected Makers in the Cancer Genome Atlas Database. (a), overall survival for EIF4A2 (p=0.0364); (b), disease free survival for EIF4A2 (p=0.0107); (c), overall survival for PMEPA1 (p=0.0337); (d), disease free survival for CTNNA1 (p=0.0232).
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