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Journal of Neuro-Oncology

, Volume 125, Issue 2, pp 253–263 | Cite as

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

  • Xiao-Qin Zhang
  • Karrie Mei-Yee Kiang
  • Yue-Chun Wang
  • Jenny Kan-Suen Pu
  • Amy Ho
  • Stephen Yin Cheng
  • Derek Lee
  • Ping-De Zhang
  • Jia-Jing Chen
  • Wai-Man Lui
  • Ching-Fai Fung
  • Gilberto Ka-Kit Leung
Laboratory Investigation

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.

Keywords

IDH1 mutation Glioma LncRNA Metabolism Cell growth Cell apoptosis 

Notes

Acknowledgments

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

Compliance with ethical standards

Conflict of interest

The authors declared no competing interest.

Supplementary material

11060_2015_1916_MOESM1_ESM.jpg (140 kb)
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)
11060_2015_1916_MOESM2_ESM.doc (104 kb)
Supplementary material 2 (DOC 103 kb)

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Copyright information

© Springer Science+Business Media New York 2015

Authors and Affiliations

  • Xiao-Qin Zhang
    • 1
  • Karrie Mei-Yee Kiang
    • 1
  • Yue-Chun Wang
    • 2
  • Jenny Kan-Suen Pu
    • 1
  • Amy Ho
    • 1
  • Stephen Yin Cheng
    • 1
  • Derek Lee
    • 1
  • Ping-De Zhang
    • 1
  • Jia-Jing Chen
    • 2
  • Wai-Man Lui
    • 1
  • Ching-Fai Fung
    • 1
  • Gilberto Ka-Kit Leung
    • 1
  1. 1.Department of Surgery, Li Ka Shing Faculty of Medicine, The University of Hong KongQueen Mary HospitalHong KongChina
  2. 2.Department of PhysiologyMedicine College of Jinan UniversityGuangzhouChina

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