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IDH1 mutation-associated long non-coding RNA expression profile changes in glioma

  • Laboratory Investigation
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Abstract

Isocitrate dehydrogenase 1 (IDH1) mutation is an important prognostic marker in glioma. However, its downstream effect remains incompletely understood. Long non-coding RNAs (lncRNAs) are emerging as important regulators of tumorigenesis in a number of human malignancies, including glioma. Here, we investigated whether and how lncRNA expression profiles would differ between gliomas with or without IDH1 mutation. By using our previously reported lncRNA mining approach, we performed lncRNA profiling in three public glioma microarray datasets. The differential lncRNA expression analysis was then conducted between mutant-type and wild-type IDH1 glioma samples. Comparison analysis identified 14 and 9 lncRNA probe sets that showed significantly altered expressions in astrocytic and oligodendroglial tumors, respectively (fold change ≥ 1.5, false discovery rate ≤ 0.1). Moreover, the differential expressions of these lncRNAs could be confirmed in the independent testing sets. Functional exploration of the lncRNAs by analyzing the lncRNA—protein interactions revealed that these IDH1 mutation-associated lncRNAs were involved in multiple tumor-associated cellular processes, including metabolism, cell growth and apoptosis. Our data suggest the potential roles of lncRNA in gliomagenesis, and may help to understand the pathogenesis of gliomas associated with IDH1 mutation.

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Acknowledgments

We would like to thank Dr. Stella Sun for her suggestions in data analysis.

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    1. Department of Surgery, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Queen Mary Hospital, 102 Pokfulam Road, Hong Kong, China

      Xiao-Qin Zhang, Karrie Mei-Yee Kiang, Jenny Kan-Suen Pu, Amy Ho, Stephen Yin Cheng, Derek Lee, Ping-De Zhang, Wai-Man Lui, Ching-Fai Fung & Gilberto Ka-Kit Leung

    2. Department of Physiology, Medicine College of Jinan University, Guangzhou, China

      Yue-Chun Wang & Jia-Jing Chen

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    11060_2015_1916_MOESM1_ESM.jpg

    S-Fig.1: Interspecies conservation analysis of lncRNAs. Three of IDH1 mutation-associated lncRNAs (as above) showed detectable conservation at certain area. a UCSC Genome Browser on Human (hg19) Assembly; b Placental Mammal Basewise Conservation by PhyloP; c Multiz Alignment of Vertebrates. Supplementary material 1 (JPEG 140 kb)

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    Zhang, XQ., Kiang, K.MY., Wang, YC. et al. IDH1 mutation-associated long non-coding RNA expression profile changes in glioma. J Neurooncol 125, 253–263 (2015). https://doi.org/10.1007/s11060-015-1916-9

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