NDLI: Microarray data analysis of neuroblastoma: Expression of SOX2 downregulates the expression of MYCN.

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Microarray data analysis of neuroblastoma: Expression of SOX2 downregulates the expression of MYCN.

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Microarray data analysis of neuroblastoma: Expression of SOX2 downregulates the expression of MYCN.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Zhu, Linchao Zhang, Shufeng Qin, Luying Cui, Lingling Meng, Qinglei Wang, Xiaohui Bao, Juntao
Description	Author Affiliation: Bao J ( Department of Pediatric Surgery, Henan Provincial People's Hospital, Zhengzhou, Henan 450003, P.R. China.); Qin L ( Nursing College, Zhengzhou University, Zhengzhou, Henan 450001, P.R. China.); Cui L ( College of Public Health, Zhengzhou University, Zhengzhou, Henan 450001, P.R. China.); Wang X ( Department of Pediatric Surgery, Henan Provincial People's Hospital, Zhengzhou, Henan 450003, P.R. China.); Meng Q ( Department of Pediatric Surgery, Henan Provincial People's Hospital, Zhengzhou, Henan 450003, P.R. China.); Zhu L ( Department of Pediatric Surgery, Henan Provincial People's Hospital, Zhengzhou, Henan 450003, P.R. China.); Zhang S ( Department of Pediatric Surgery, Henan Provincial People's Hospital, Zhengzhou, Henan 450003, P.R. China.)
Abstract	The present study aimed to identify the genes directly or indirectly correlated with the amplification of MYCN in neuroblastoma (NB). Microarray data (GSE53371) were downloaded from Gene Expression Omnibus, and included 10 NB cell lines with MYCN amplification and 10 NB cell lines with normal MYCN copy numbers. Differentially expressed genes (DEGs) were identified using the Linear Models for Microarray Data package, and a false discovery rate of <0.05 and \|log2FC (fold change)\|>1 were selected as cutoff criteria. Hierarchical clustering analysis and Gene Ontology analysis were respectively performed for the DEGs using the Pheatmap package in R language and The Database for Annotation, Visualization and Integrated Discovery. A proteinprotein interaction network (PPI) was constructed for the DEGs using the Search Tool for the Retrieval of Interacting Genes database. Pathway analysis was performed for the DEGs in the PPI network using the WEBbased GEne SeT AnaLysis Toolkit. The correlation between MYCN and the key gene associated with MYCN was determined using Pearson's correlation coefficient. In total, 137 downregulated and 35 upregulated DEGs were identified. Functional enrichment analysis indicated that KCNMB4 was involved in the regulation of action potential in neuron term, and the FOS, GLI3 and GLI1 genes were involved in the extracellular matrixreceptor interaction pathway. The PPI network and correlation analysis revealed that the expression of SOX2 was directly correlated with the expression of MYCN, and the correlation coefficient of SOX2 and MYCN was 0.83. Therefore, SOX2, KCNMB4, FOS, GLI3 and GLI1 may be involved in the pathogenesis of NB, with the expression of SOX2 downregulating the expression of MYCN.
ISSN	17912997
e-ISSN	17913004
Journal	Molecular Medicine Reports
Issue Number	5
Volume Number	12
Language	English
Publisher	Spandidos Publications
Publisher Date	2015-11-01
Publisher Place	Greece
Access Restriction	Open
Subject Keyword	Gene Expression Regulation, Neoplastic Neuroblastoma Genetics Nuclear Proteins Oncogene Proteins Soxb1 Transcription Factors Cell Line, Tumor Down-regulation Gene Dosage Gene Ontology Microarray Analysis Metabolism Protein Interaction Maps Up-regulation Discipline Molecular Biology
Content Type	Text
Resource Type	Article
Subject	Genetics Biochemistry Molecular Biology Cancer Research Molecular Medicine Oncology

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