The Landscape of Viral Expression Reveals Clinically Relevant Viruses with Potential Capability of Promoting Malignancy in Lower-Grade Glioma
| Autor: | Lihua Sun, Jianjun Luo, Zhiliang Wang, Chuanbao Zhang, Zheng Wang, Runsheng Chen, Jingshan Liang, Guanzhang Li, Yajing Hao, Xing Liu, Tao Jiang, Dabiao Zhou |
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| Rok vydání: | 2017 |
| Předmět: |
Male
0301 basic medicine Cancer Research Transcription Genetic viruses Simian virus 40 Biology Malignancy Bioinformatics Genome Virus 03 medical and health sciences Glioma medicine Humans Woolly monkey sarcoma virus Gene Survival analysis Cell Proliferation Proportional Hazards Models Genome Human Sarcoma Virus Woolly Monkey Sequence Analysis RNA Endogenous Retroviruses medicine.disease Survival Analysis 030104 developmental biology Oncology Cancer research Female Human genome Neoplasm Grading |
| Zdroj: | Clinical Cancer Research. 23:2177-2185 |
| ISSN: | 1557-3265 1078-0432 |
| DOI: | 10.1158/1078-0432.ccr-16-1495 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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