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Pathway and Network Analysis in Glioma with the Partial Least Squares Method

  • Gu, Wen-Tao (Department of Neurosurgery, Huashan Hospital, Fudan University) ;
  • Gu, Shi-Xin (Department of Neurosurgery, Huashan Hospital, Fudan University) ;
  • Shou, Jia-Jun (Department of Neurosurgery, Huashan Hospital, Fudan University)
  • Published : 2014.04.01

Abstract

Gene expression profiling facilitates the understanding of biological characteristics of gliomas. Previous studies mainly used regression/variance analysis without considering various background biological and environmental factors. The aim of this study was to investigate gene expression differences between grade III and IV gliomas through partial least squares (PLS) based analysis. The expression data set was from the Gene Expression Omnibus database. PLS based analysis was performed with the R statistical software. A total of 1,378 differentially expressed genes were identified. Survival analysis identified four pathways, including Prion diseases, colorectal cancer, CAMs, and PI3K-Akt signaling, which may be related with the prognosis of the patients. Network analysis identified two hub genes, ELAVL1 and FN1, which have been reported to be related with glioma previously. Our results provide new understanding of glioma pathogenesis and prognosis with the hope to offer theoretical support for future therapeutic studies.

Keywords

Glioma;partial least squares;gene expression;pathway;survival analysis;network

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