Identification of the Genes and Pathways in Glioblastoma cell lines by bioinformatics analysis

Glioblastoma is the most common type of malignant brain tumor which characterized by high mortality and poor prognosis. The average survival of this cancer has estimated about ۸ to ۱۰ months. Therefore, it is important to choose the most effective strategy for molecular diagnosis and interactions to treatment. For this aim, bioinformatics analysis of microarray data was applied to find the association of decreased and increased in gene expressions and relevant miRNAs in glioblastoma cell lines.The microarray datasets GSE۵۰۱۷۳, GSE۹۱۷۱ and GSE۱۵۸۲۴ which was composed of gene expression data were downloaded from the GEO database. Each dataset was processed by using the log۲ transformation and normalized by Package of Affy and RMA in R software. Differently expressed genes with P.value <۰.۰۵ and fold change (| FC| )>۲ were selected as biomarkers in all three datasets. Functional and pathway enrichment analysis were performed by using the BioDB and EnrichR databases, although, protein–protein interaction network was constructed by Cytoscape software. A total of ۳۵۴۴۶ Genes in three datasets showed significantly differences in expression levels (P-value <۰.۰۵), among them, approximately ۶۷ genes showed Up regulation with log Fold change more than ۲ and ۶۸۳ genes down regulation with log Fold change less than ۲. To assess the function of the di↵erently expressed genes, the gene ontology, Kyoto Encyclopedia of Genes and Genomes and pathway enrichment analyses from EnrichR with adjusted p-value <۰.۰۵ were used. It is showed that up regulated genes were enriched in “cytosolic part”,”ribosome”,”focal adhesion” and down regulated genes were in “RNA binding”,” insulin receptor binding”, ”double-stranded DNA binding” significantly (p-value <۰.۰۵). In this study, we used some databases to determine the variation expression of some target genes in glioblastoma cell lines