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Clin Cancer Res. 2017 May 1;23(9):2177-2185. doi: 10.1158/1078-0432.CCR-16-1495. Epub 2016 Nov 18.

The Landscape of Viral Expression Reveals Clinically Relevant Viruses with Potential Capability of Promoting Malignancy in Lower-Grade Glioma.

Wang Z1,2,3, Hao Y4,5,6, Zhang C1,2,3, Wang Z2,3, Liu X2,3, Li G1,2,3, Sun L1,2,3, Liang J1,2,3, Luo J4,5,6, Zhou D7, Chen R8,5, Jiang T9,2,3,10,11.

Author information

1
Department of Molecular Neuropathology, Beijing Neurosurgical Institute, Capital Medical University, Beijing, China.
2
Department of Neurosurgery, Beijing Tiantan Hospital, Capital Medical University, Beijing, China.
3
Chinese Glioma Genome Atlas Network, Beijing, China.
4
Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.
5
Beijing Key Laboratory of Noncoding RNA, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.
6
University of Chinese Academy of Sciences, Beijing, China.
7
Department of Neurosurgery, Beijing Tiantan Hospital, Capital Medical University, Beijing, China. taojiang1964@163.com dabiao@yeah.net rschen@ibp.ac.cn.
8
Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China. taojiang1964@163.com dabiao@yeah.net rschen@ibp.ac.cn.
9
Department of Molecular Neuropathology, Beijing Neurosurgical Institute, Capital Medical University, Beijing, China. taojiang1964@163.com dabiao@yeah.net rschen@ibp.ac.cn.
10
Center of Brain Tumor, Beijing Institute for Brain Disorders, Beijing, China.
11
China National Clinical Research Center for Neurological Diseases, Beijing, China.

Abstract

Purpose: RNA sequencing (RNA-seq) has recently proved to be effective for revealing novel virus-tumor associations. To get a thorough investigation of virus-glioma associations, we screened viruses in gliomas with RNA-seq data from the Chinese Glioma Genome Atlas project.Experimental Design: In total, 325 samples were enrolled into this study. Reads that failed to map to the human genome were aligned to viral genomes and screened for potential virus-derived transcripts. For quantification, VPKM was calculated according to mapped reads weighted by genome sizes and sequencing depth.Results: We observed that viruses tended to concertedly express in a certain subgroup of patients. Survival analysis revealed that individuals who were infected with Simian virus 40 (SV40) or woolly monkey sarcoma virus (WMSV) had a significantly shorter overall survival than those uninfected. A multivariate Cox proportional hazards model, taking clinical and molecular factors into account, was applied to assess the prognostic value of SV40 and WMSV. Both SV40 and WMSV were independent prognostic factors for predicting patient's survival in lower-grade gliomas. Subsequent gene analysis demonstrated that SV40 was correlated with regulation of transcription, whereas WMSV was correlated with cell-cycle phase, which indicated frequent proliferation of tumor cells.Conclusions: RNA-seq was sufficient to identify virus infection in glioma samples. SV40 and WMSV were identified to be prognostic markers for patients with lower-grade gliomas and showed potential values for targeting therapy. Clin Cancer Res; 23(9); 2177-85. ©2016 AACR.

PMID:
27864420
DOI:
10.1158/1078-0432.CCR-16-1495
[Indexed for MEDLINE]
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