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An immune-related lncRNA signature for patients with anaplastic gliomas

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Abstract

We investigated immune-related long non-coding RNAs (lncRNAs) that may be exploited as potential therapeutic targets in anaplastic gliomas. We obtained 572 lncRNAs and 317 immune genes from the Chinese Glioma Genome Atlas microarray and constructed immune-related lncRNAs co-expression networks to identify immune-related lncRNAs. Two additional datasets (GSE16011, REMBRANDT) were used for validation. Gene set enrichment analysis and principal component analysis were used for functional annotation. Immune-lncRNAs co-expression networks were constructed. Nine immune-related lncRNAs (SNHG8, PGM5-AS1, ST20-AS1, LINC00937, AGAP2-AS1, MIR155HG, TUG1, MAPKAPK5-AS1, and HCG18) signature was identified in patients with anaplastic gliomas. Patients in the low-risk group showed longer overall survival (OS) and progression-free survival than those in the high-risk group (P < 0.0001; P < 0.0001). Additionally, patients in the high-risk group displayed no-deletion of chromosomal arms 1p and/or 19q, isocitrate dehydrogenase wild-type, classical and mesenchymal TCGA subtype, G3 CGGA subtype, and lower Karnofsky performance score (KPS). Moreover, the signature was an independent factor and was significantly associated with the OS (P = 0.000, hazard ratio (HR) = 1.434). These findings were further validated in two additional datasets (GSE16011, REMBRANDT). Low-risk and high-risk groups displayed different immune status based on principal components analysis. Our results showed that the nine immune-related lncRNAs signature has prognostic value for anaplastic gliomas.

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Abbreviations

AG:

Anaplastic glioma

OS:

Overall survival

lncRNA:

Long noncoding RNA

CGGA:

Chinese Glioma Genome Atlas

PCA:

Principal components analysis

GSEA:

Gene set enrichment analysis

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Acknowledgements

We thank Dr. Hao Li for his assistance in analyzing the data.

Funding

This work was supported by grants from Ministry of Science and Technology of China Grant (2012CB825505 and 2011BAI08B08); National Key Technology Research and Development Program of the Ministry of Science and Technology of China (2013BAI09B03, 2014BAI04B02); National High Technology Research and Development Program (No. 2012AA02A508); National Natural Science Foundation of China (No. 91229121); Beijing Municipal Administration of Hospitals’ Mission Plan (SML20150501); “13th Five-Year Plan” National Science and Technology supporting plan (2015BAI09B04).

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Authors and Affiliations

  1. Department of Neurosurgery, Beijing Tiantan Hospital, Capital Medical University, No. 6 Tiantan Xili, Dongcheng District, Beijing, 100050, China

    Wen Wang, Fan Yang, Tingyu Liang, Jiangfei Wang & Jizong Zhao

  2. Department of Neurosurgery, The Second Affiliated Hospital of Soochow University, Suzhou, 215123, China

    Wen Wang, Qing Lan & Jizong Zhao

  3. Beijing Neurosurgical Institute, Capital Medical University, Beijing, 100050, China

    Zheng Zhao, Fan Yang, Fan Wu, Tingyu Liang, Xiaoyan Yan & Jiye Li

  4. Department of Neurosurgery, The First Affiliated Hospital of Anhui Medical University, Hefei, 230032, China

    Haoyuan Wang

  5. Chinese Glioma Cooperative Group (CGCG), Beijing, China

    Wen Wang, Zheng Zhao, Fan Yang, Haoyuan Wang, Fan Wu, Tingyu Liang, Xiaoyan Yan & Jiangfei Wang

  6. China National Clinical Research Center for Neurological Diseases, Beijing, China

    Wen Wang, Jiangfei Wang & Jizong Zhao

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  1. Wen Wang
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  2. Zheng Zhao
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  3. Fan Yang
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  9. Qing Lan
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  10. Jiangfei Wang
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Correspondence to Jiangfei Wang or Jizong Zhao.

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11060_2017_2667_MOESM1_ESM.tif

Figure S1. Construction of immune-related lncRNAs co-expression networks. A. Immune-related lncRNAs co-expression networks based on 572 lncRNAs and 317 immune genes (P ≤ 0.001). B. Immune-related lncRNAs co-expression networks based on nine prognostic lncRNAs (P ≤ 0.001). Red, lncRNAs; Green, mRNAs. (TIF 5336 KB)

11060_2017_2667_MOESM2_ESM.tif

Figure S2. Kaplan-Meier curves for OS and PFS among AG patients from different groups stratified by the status of 1p and/or 19q and IDH in three datasets. (TIF 811 KB)

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Wang, W., Zhao, Z., Yang, F. et al. An immune-related lncRNA signature for patients with anaplastic gliomas. J Neurooncol 136, 263–271 (2018). https://doi.org/10.1007/s11060-017-2667-6

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