Bioinformatics study in personal medicine of medulloblastoma

Introduction: Medulloblastoma is the most common malignant brain tumor in children. Dysregulation of signaling pathways that regulate normal stem cell development, may contribute to medulloblastoma pathogenesis. Correction of the dysregulation in these signaling pathways may target medulloblastoma and eliminate tumor cells completely. One of the important gene that play role in medulloblastoma is MINA or RIOX2 (Ribosomal Oxygenase 2) is a c-Myc target gene that may play a role in cell proliferation or regulation of cell growth. Since it is SNPs that are responsible for over 80% of the variation between two individuals, they are ideal for the task of hunting for correlations between genotype and phenotype. As some SNPs predispose individuals to have a certain disease or trait or react to a drug in a different way, they will be highly useful in personal medicine and drug development.Material and method: genes expression profiling by array of 19 human primary medulloblastoma and 3 human neural stem cells were extracted from NCBI Geo datasets. Genes are compared with logfc for their expression, and sorted by their p-value. Finally gene with most modification in medulloblastoma is selected for further analysis. Its most important SNPs are selected from NCBI database. Also its most related pathways and gene function are identified by Gene Card database. It’s normal and affected RNA structure (with SNP) is determined by genebee database, and its normal and affected protein structure are identified through soft berry and ExPASy database. Results: RIOX2 has hyperexpression in medulloblastoma patients. It plays an important roles in targets of C-MYC transcriptional activation and interact with MYC and SP9 that establish its function in medulloblastoma pathogenesis. RIOX2 protein has multiple α-helix, β-sheet and β-turn in its protein structure. Its RNA structure has several hairpin and stem loop, especially at the both end of the RNA. There are a differences between its natural RNA and protein structures and its structures with SNP through analysis. Conclusion: according to RIOX2 function and pathways, this point is stated that RIOX2 has potential activity in medulloblastoma pathogenesis. The structures differences that make through SNP can be used for medulloblastoma therapy through drug designing against its affected structures in chemotherapy, because each individuals have especial SNPs in this gene that affect its RNA and protein structures

کلیدواژه ها:

Medulloblastoma ، RIOX2 gene ، RNA and protein structure ، SNP ، Personal medicine