A Bioinformatics Approach to Identify Potential Biomarkers in Non-Small Cell Lung Cancer

Esen Çakmak

doi:10.17776/csj.976510

EN

A Bioinformatics Approach to Identify Potential Biomarkers in Non-Small Cell Lung Cancer

Abstract

Non-small cell lung cancer (NSCLC) is responsible for about 85% of lung cancer types. The molecular mechanism of NSCLC has not been completely elucidated. The current study aims to explore the potential biomarkers and targets for NSCLC. The gene and miRNA expression profiles were downloaded from the Gene Expression Omnibus (GEO) database. The differentially expressed miRNAs (DEMs) and genes (DEGs) were determined and used for further analysis. Functional enrichment analyses were applied using the DAVID program. Moreover, the miRNA targets were predicted based on the miRWalk. The STRING software was constructed protein-protein interaction (PPI) and miRNA-mRNA networks and Cytoscape software was used to visualize PPI and miRNA-mRNA networks and to identify hub genes. As a result of bioinformatic analysis, a total of 159 DEGs and 22 DEMs were identified and DEGs were mostly enriched in the terms like ECM receptor interaction, signal transduction and leukocyte transendothelial migration. The identified hub genes were IL6, COL1A1, CLDN5, CAV1, CDH5, SPP1, GNG11, PPBP, CXCL2 and CXCR2. A total of 239 target genes were identified as potential mRNAs. The most significantly identified genes and miRNAs could serve as potential biomarkers for NSCLC.

Keywords

References

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Details

Primary Language

English

Subjects

Structural Biology

Journal Section

Research Article

Authors

Esen Çakmak ^*
0000-0001-8805-3315
Türkiye

Publication Date

March 30, 2022

Submission Date

July 30, 2021

Acceptance Date

January 9, 2022

Published in Issue

Year 2022 Volume: 43 Number: 1

DOI

https://doi.org/10.17776/csj.976510

IZ

https://izlik.org/JA42ZF68CA

Cite

RIS / Bibtex

APA

Çakmak, E. (2022). A Bioinformatics Approach to Identify Potential Biomarkers in Non-Small Cell Lung Cancer. Cumhuriyet Science Journal, 43(1), 6-13. https://doi.org/10.17776/csj.976510