Expression alterations define unique molecular characteristics of spinal ependymomas

Lourdusamy, Anbarasu and Rahman, Ruman and Grundy, Richard G. (2015) Expression alterations define unique molecular characteristics of spinal ependymomas. Oncotarget, 6 (23). pp. 19780-19791. ISSN 1949-2553

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Abstract

Ependymomas are glial tumors that originate in either intracranial or spinal regions. Although tumors from different regions are histologically similar, they are biologically distinct. We therefore sought to identify molecular characteristics of spinal ependymomas (SEPN) in order to better understand the disease biology of these tumors. Using gene expression profiles of 256 tumor samples, we identified increased expression of 1,866 genes in SEPN when compared to intracranial ependymomas. These genes are mainly related to anterior/posterior pattern specification, response to oxidative stress, glial cell differentiation, DNA repair, and PPAR signalling, and also significantly enriched with cellular senescence genes (P = 5.5 × 10-03). In addition, a high number of significantly down-regulated genes in SEPN are localized to chromosome 22 (81 genes from chr22: 43,325,255 – 135,720,974; FDR = 1.77 × 10-23 and 22 genes from chr22: 324,739 – 32,822,302; FDR = 2.07 × 10-09) including BRD1, EP300, HDAC10, HIRA, HIC2, MKL1, and NF2. Evaluation of NF2 co-expressed genes further confirms the enrichment of chromosome 22 regions. Finally, systematic integration of chromosome 22 genes with interactome and NF2 co-expression data identifies key candidate genes. Our results reveal unique molecular characteristics of SEPN such as altered expression of cellular senescence and chromosome 22 genes.

Item Type: Article
Keywords: ependymoma, gene expression, meta-analysis, co-expression network
Schools/Departments: University of Nottingham UK Campus > Faculty of Medicine and Health Sciences > School of Medicine > Division of Child Health, Obstetrics and Gynaecology
Identification Number: https://doi.org/10.18632/oncotarget.3715
Depositing User: Rahman, Dr Ruman
Date Deposited: 17 Feb 2016 10:39
Last Modified: 16 Sep 2016 17:42
URI: http://eprints.nottingham.ac.uk/id/eprint/31769

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