Screening of differentially expressed genes associated with human glioblastoma and functional analysis using a DNA microarray

Wang,Lina; Wei,Bo; Hu,Guozhang; Wang,Le; Bi,Miaomiao; Sun,Zhigang; Jin,Ying

doi:10.3892/mmr.2015.3659

Screening of differentially expressed genes associated with human glioblastoma and functional analysis using a DNA microarray

Authors:
- Lina Wang
- Bo Wei
- Guozhang Hu
- Le Wang
- Miaomiao Bi
- Zhigang Sun
- Ying Jin
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Affiliations: Department of Ophthalmology, China‑Japan Union Hospital of Jilin University, Changchun, Jilin 130033, P.R. China, Department of Neurosurgery, China‑Japan Union Hospital of Jilin University, Changchun, Jilin 130033, P.R. China, Department of Emergency Medicine, China‑Japan Union Hospital of Jilin University, Changchun, Jilin 130033, P.R. China, Department of Ophthalmology, The First Hospital of Jilin University, Changchun, Jilin 130021, P.R. China, Department of Neurology, Institute of Jilin Oilfield General Hospital, Changchun, Jilin 131200, P.R. China
Published online on: April 22, 2015 https://doi.org/10.3892/mmr.2015.3659
Pages: 1991-1996

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Abstract

Glioblastoma multiforme (GBM) is the most malignant type of human glioma, and has a poor prognosis. Screening differentially expressed genes (DEGs) in brain tumor samples and normal brain samples is of importance for identifying GBM and to design specific‑targeting drugs. The transcriptional profile of GSE30563, containing three genechips of brain tumor samples and three genechips of normal brain samples, was downloaded from Gene Expression Omnibus to identify the DEGs. The differences in the expression of the DEGs in the two different samples were compared through hierarchical biclustering. The co‑expression coefficient of the DEGs was calculated using the information from COXPRESdb, the network of the DEGs was constructed and functional enrichment and pathway analysis were performed. Finally, the transcription factors of important DEGs were predicted. A total of 1,006 DEGs, including 368 upregulated and 638 downregulated DEGs, were identified. A close correlation was demonstrated between six important genes, associated with immune response, HLA‑DQB1, HLA‑DRB1, HLA‑DPA1, HLA‑B, HLA‑DMA and HLA‑DRA, and the immune response. Allograft rejection was selected as the most significant pathway. A total of 17 transcription factors, including nuclear factor (NF)‑κB and NF‑κB1, and their binding sites containing these six DEGs, were also identified. The DEGs, including major histocompatibility complex (MHC) class II, DQβ1, MHC class II, DRβ1, MHC class IB, MHC class II, DMα, MHC class II, DPα1, MHC class II, DRα, may provide novel targets for the diagnosis and treatment of GBM. The transcription factors of these six genes and their binding sites may also provide evidence and direction for identifying target-specific drugs.

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