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Carcinogenesis. 2019 Jun 3. pii: bgz102. doi: 10.1093/carcin/bgz102. [Epub ahead of print]

Systematically characterize the clinical and biological significances of 1p19q genes in 1p/19q non-codeletion glioma.

Chai RC1,2,3, Zhang KN1,2, Chang YZ4, Wu F1,2, Liu YQ1,2, Zhao Z1,2, Wang KY1,2, Chang YH1,2, Jiang T1,4,2,3, Wang YZ1,4,2,3.

Author information

1
Department of Molecular Neuropathology, Beijing Neurosurgical Institute, Capital Medical University, Beijing, China.
2
Chinese Glioma Genome Atlas Network (CGGA), Beijing, China.
3
China National Clinical Research Center for Neurological Diseases.
4
Department of Neurosurgery, Beijing Tiantan Hospital, Capital Medical University, Beijing, China.

Abstract

1p/19q codeletion, which leads to the abnormal expression of 1p19q genes in oligodendroglioma, is associated with chemosensitivity and favorable prognosis. Here, we aimed to explore the clinical implications of 1p19q gene expression in 1p/19q non-codel gliomas. We analyzed expression of 1p19q genes in 668 1p/19q non-codel gliomas obtained from The Cancer Genome Atlas (TCGA) (n = 447) and the Chinese Glioma Genome Atlas (CGGA) (n = 221) for training and validation, respectively. The expression of 1p19q genes was significantly correlated with the clinicopathological features and overall survival (OS) of 1p/19q non-codel gliomas. Then, we derived a risk signature of 25 selected 1p19q genes that not only had prognosis value in total 1p/19q non-codel gliomas but also had prognosis value in stratified gliomas. The prognosis value of the risk signature was superior than known clinicopathological features in 1p/19q non-codel gliomas and was also highly associated with the following features: loss of CDKN2A/B copy number in mutant-IDH-astrocytoma; TERT promoter mutation, combined chromosome 7 gain / chromosome 10 loss, and EGFR amplification in wildtype-IDH-astrocytoma; Classical and Mesenchymal subtypes in glioblastoma. Furthermore, genes enriched in the biological processes of cell division, extracellular matrix, angiogenesis significantly correlated to the signature risk-score, and this is also supported by the immunohistochemistry and cell biology experiments. In conclusion, the expression profile of 1p19q genes is highly associated with the malignancy and prognosis of 1p/19q non-codel gliomas. A 25-1p19q-gene signature has powerfully predictive value for both malignant molecular pathological features and prognosis across distinct subgroups of 1p/19q non-codel gliomas.

KEYWORDS:

1p/19q codeletion; KIF2C; glioma; prognosis; risk signature

PMID:
31157866
DOI:
10.1093/carcin/bgz102

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