title: Module function and two-way clustering analysis of Epstein-Barr virus-related nasopharyngeal cancer.
abstract: This study sought to identify and characterize the function of genes as diagnostic markers for Epstein-Barr virus (EBV)-related nasopharyngeal cancer (NPC). The gene expression profile of GSE13597 was downloaded from the Gene Expression Omnibus database, which included 28 EBV-related NPC gene expression profile data sets, 25 disease samples, and 3 control samples. Data were pre-processed, and differentially expressed genes were screened using the R language. The co-expression coefficient was calculated to construct a co-expression network using Cytoscape. ClusterONE was used to perform module analysis to find enriched gene families. The BiCAT software was used to perform a two-way clustering analysis of differentially expressed gene expression profiles based on the co-expression networks and to verify the enriched gene families, followed by functional enrichment analysis of these gene families. The MCM gene family was found to be enriched in EBV-related NPC. This gene family is essential for eukaryotic DNA replication. Functional analysis of differentially expressed genes in the co-expression network revealed that the enriched biological processes and pathways were mainly involved in the cell cycle. EBV-related NPC is likely associated mainly with the process of cell reproduction, providing a strong basis for the prevention, diagnosis, and treatment of EBV-related NPC and a direction for targeted chemotherapy.
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, West China Hospital, Cheng Du, Sichuan, China.
authors.forename: F
authors.initials: F
authors.lastname: Chen
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, West China Hospital, Cheng Du, Sichuan, China.
authors.forename: J
authors.initials: J
authors.lastname: Liu
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, Cheng Du No. 7 People's Hospital, Cheng Du, Sichuan, China.
authors.forename: M
authors.initials: M
authors.lastname: Fan
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, Chengdu 363 Hospital, Cheng Du, Sichuan, China.
authors.forename: X M
authors.initials: XM
authors.lastname: Wei
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, Cheng Du No. 7 People's Hospital, Cheng Du, Sichuan, China.
authors.forename: Y L
authors.initials: YL
authors.lastname: Xie
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, West China Hospital, Cheng Du, Sichuan, China.
authors.forename: L H
authors.initials: LH
authors.lastname: Wang
authors.affiliation: Department of Otorhinolaryngology and Head & Neck Surgery, West China Hospital, Cheng Du, Sichuan, China yanghuiyyhh@hotmail.com.
authors.forename: H
authors.initials: H
authors.lastname: Yang
mesh_terms: D016000:Cluster Analysis; D020031:Epstein-Barr Virus Infections / Q000150:complications / Q000235:genetics* / Q000473:pathology / Q000821:virology; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D004854:Herpesvirus 4, Human / Q000235:genetics / Q000472:pathogenicity*; D006801:Humans; D009303:Nasopharyngeal Neoplasms / Q000150:complications / Q000235:genetics / Q000473:pathology / Q000821:virology*