Open Access

Bioinformatics analysis identifies hub genes and pathways in nasopharyngeal carcinoma

  • Authors:
    • Kang Liu
    • Min Kang
    • Ziyan Zhou
    • Wen Qin
    • Rensheng Wang
  • View Affiliations

  • Published online on: August 2, 2019     https://doi.org/10.3892/ol.2019.10707
  • Pages: 3637-3645
  • Copyright: © Liu et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

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Abstract

The aim of the present study was to identify genes associated with and the underlying mechanisms in nasopharyngeal carcinoma (NPC) using microarray data. GSE12452 and GSE34573 gene expression profiles were obtained from the Gene Expression Omnibus (GEO) database. GEO2R was utilized to obtain differentially expressed genes (DEGs). In addition, the Database for Annotation, Visualization and Integrated Discovery was used to perform pathway enrichment analyses for DEGs using the Gene Ontology (GO) annotation along with the Kyoto Encyclopedia of Genes and Genomes (KEGG). Furthermore, Cytoscape was used to perform module analysis of the protein‑protein interaction (PPI) network and pathways of the hub genes were studied. A total of 298 genes were ascertained as DEGs in the two datasets. To functionally categorize these DEGs, we obtained 82 supplemented GO terms along with 7 KEGG pathways. Subsequently, a PPI network consisting of 10 hub genes with high degrees of interaction was constructed. These hub genes included cyclin‑dependent kinase (CDK) 1, structural maintenance of chromosomes (SMC) 4, kinetochore‑associated (KNTC) 1, kinesin family member (KIF) 23, aurora kinase A (AURKA), ATAD (ATPase family AAA domain containing) 2, NDC80 kinetochore complex component, enhancer of zeste 2 polycomb repressive complex 2 subunit, BUB1 mitotic checkpoint serine/threonine kinase and protein regulator of cytokinesis 1. CDK1, SMC4, KNTC1, KIF23, AURKA and ATAD2 presented with high areas under the curve in receiver operator curves, suggesting that these genes may be diagnostic markers for nasopharyngeal carcinoma. In conclusion, it was proposed that CDK1, SMC4, KNTC1, KIF23, AURKA and ATAD2 may be involved in the tumorigenesis of NPC. Furthermore, they may be utilized as molecular biomarkers in early diagnosis of NPC.

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October 2019
Volume 18 Issue 4

Print ISSN: 1792-1074
Online ISSN:1792-1082

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APA
Liu, K., Kang, M., Zhou, Z., Qin, W., & Wang, R. (2019). Bioinformatics analysis identifies hub genes and pathways in nasopharyngeal carcinoma. Oncology Letters, 18, 3637-3645. https://doi.org/10.3892/ol.2019.10707
MLA
Liu, K., Kang, M., Zhou, Z., Qin, W., Wang, R."Bioinformatics analysis identifies hub genes and pathways in nasopharyngeal carcinoma". Oncology Letters 18.4 (2019): 3637-3645.
Chicago
Liu, K., Kang, M., Zhou, Z., Qin, W., Wang, R."Bioinformatics analysis identifies hub genes and pathways in nasopharyngeal carcinoma". Oncology Letters 18, no. 4 (2019): 3637-3645. https://doi.org/10.3892/ol.2019.10707