Identification of novel human glioblastoma-specific transcripts by serial analysis of gene expression data mining

Article type: Research Article

Authors: Su, Yanlin^a | Xiong, Jie^a | Bing, Zhitong^b | Zeng, Xiaomin^c | Zhang, Yong^a | Fu, Xiaohua^a | Peng, Xiaoning^{a; *}

Affiliations: [a] Department of Internal Medicine, College of Medicine, Hunan Normal University, Changsha, Hunan, China | [b] Institute of Modern Physics of Chinese Academy of Sciences, Lanzhou, Gansu, China | [c] Department of Statistics and Epidemiology, Public Health School, Central South University, Changsha, Hunan, China

Correspondence: [*] Corresponding author: Xiaoning Peng, Mailing address: No.371, Tongzipo Road, Changsha, Hunan, China. Tel.: +86 731 88912598; Fax: +86 731 88912417; E-mail: [email protected].

Abstract: Background:Glioblastoma multiforme (GBM) remains the most common and aggressive primary brain tumor in adults with a poor median survival, and molecular biomarkers for GBM pathogenesis are in need. Purpose:The objective of this study is to identify potential novel genes for GBM pathogenesis by gene expression data mining. Materials and Methods:Available SAGE libraries of GBM, astrocytoma, and normal brain tissues were collected from the Cancer Genome Anatomy Project (CGAP). Significance analysis for microarray (SAM) and CGAP-SAGE-Genie-DGED were used to identify differentially expressed tags, and specific tags that were differentially expressed only in GBM were further selected. Tags to genes association was performed by CGAP-SAGE-Genie-SAV. Immunohistochemistry was used to investigate distribution and validate expression of the interested gene. Results:Three genes were significantly differentially expressed just in brain. up-regulated expression of STAB1 and down-regulated expression of SH3GL2 and DNM3. Immunohistochemistry assay indicated that STAB1 mainly expressed in vascular endothelial cells and over-expressed in GBM samples compared to normal samples. Conclusions:Our study shows that data mining of public sources of gene expression is an effective way to identify novel tumor-associated genes, and this work may contribute to the identification of candidate genes for GBM angiogenesis.

Keywords: GBM, astrocytoma, SAGE, specific gene, STAB1, angiogenesis

DOI: 10.3233/CBM-130367

Journal: Cancer Biomarkers, vol. 13, no. 5, pp. 367-375, 2013