Identification of robust diagnostic and prognostic gene signatures in different grades of gliomas: a retrospective study

doi:10.7717/peerj.11350

	Identification of robust diagnostic and prognostic gene signatures in different grades of gliomas: a retrospective study
	Liu, Jieting 1,2,9; Zhang, Hongrui 3; Zhang, Jingyun 4,5; Bing, Zhitong 6,7; Wang, Yingbin 1; Li, Qiao 8; Yang, Kehu 2,9
刊名	PEERJ
	2021-05-11
卷号	9 页码:23
关键词	Gliomas Bioinformatics Gene Signatures Prognosis LASSO
ISSN号	2167-8359
DOI	10.7717/peerj.11350
通讯作者	Yang, Kehu(ke-huyangebm2006@126.com)
英文摘要	Background. Gliomas are the most common primary tumors of the central nervous system. The complexity and heterogeneity of the tumor makes it difficult to obtain good biomarkers for drug development. In this study, through The Cancer Genome Atlas (TCGA) and Chinese Glioma Genome Atlas (CGGA), we analyze the common diagnostic and prognostic moleculer markers in Caucasian and Asian populations, which can be used as drug targets in the future. Methods. The RNA-seq data from Genotype-Tissue Expression (GTEx) and The Cancer Genome Atlas (TCGA) were analyzed to identify signatures. Based on the signatures, the prognosis index (PI) of every patient was constructed to predict the prognostic risk. Also, gene ontology (GO) functional enrichment analysis and KEGG analysis were conducted to investigate the biological functions of these mRNAs. Glioma patients' data in the CGGA database were introduced to validate the effectiveness of the signatures among Chinese populations. Excluding the previously reported prognostic markers of gliomas from this study, the expression of HSPA5 and MTPN were examined by qRT-PCR and immunohistochemical assay. Results. In total, 20 mRNAs were finally selected to build PI for patients from TCGA, including 16 high-risk genes and four low-risk genes. For Chinese patients, the log-rank test p values of PI were both less than 0.0001 in two independent datasets. And the AUCs were 0.831 and 0.907 for 3 years of two datasets, respectively. Moreover, among these 20 mRNAs, 10 and 15 mRNAs also had a significant predictive effect via univariate COX analysis in CGGA_693 and CGGA_325, respectively. qRT-PCR and Immunohistochemistry assay indicated that HSPA5 and MTPN over-expressed in Glioma samples compared to normal samples. Conclusion. The 20-gene signature can forecast the risk of Glioma in TCGA effectively, moreover it can also predict the risks of Chinese patients through validation in the CGGA database. HSPA5 and MTPN are possible biomarkers of gliomas suitable for all populations to improve the prognosis of these patients.
资助项目	Fundamental Research Funds for the Central Universities[2019jbkyzy002] ; Fundamental Research Funds for the Central Universities[lzujbky-2019-ct02] ; Fundamental Research Funds for the Central Universities[2020jbkyzx001] ; Fundamental Research Funds for the Central Universities[lzujbky-2020-kb20]
WOS关键词	GLIOBLASTOMA ; CLASSIFICATION ; INHIBITION ; BIOMARKER ; THERAPY ; REVEALS ; TUMORS ; ERK
WOS研究方向	Science & Technology - Other Topics
语种	英语
出版者	PEERJ INC
WOS记录号	WOS:000649824500006
资助机构	Fundamental Research Funds for the Central Universities
内容类型	期刊论文
源URL	[http://119.78.100.186/handle/113462/137250]
专题	中国科学院近代物理研究所
通讯作者	Yang, Kehu
作者单位	1.Lanzhou Univ, Dept Anesthesiol, Hosp 2, Lanzhou, Peoples R China 2.Lanzhou Univ, Evidence Based Med Ctr, Lanzhou, Peoples R China 3.Lanzhou Univ, Coll Pharm, Lanzhou, Peoples R China 4.Zhejiang Univ, Sch Med, Sch Publ Hlth, Hangzhou, Peoples R China 5.Zhejiang Univ, Sch Med, Affiliated Hosp 2, Hangzhou, Peoples R China 6.Chinese Acad Sci, Inst Modern Phys, Dept Computat Phys, Lanzhou, Peoples R China 7.Univ Chinese Acad Sci, Sch Nucl Sci & Technol, Lanzhou, Peoples R China 8.Lanzhou Univ, Dept Neurosurg, Hosp 2, Lanzhou, Peoples R China 9.Lanzhou Univ, Clin Med Coll 1, Lanzhou, Peoples R China
推荐引用方式 GB/T 7714	Liu, Jieting,Zhang, Hongrui,Zhang, Jingyun,et al. Identification of robust diagnostic and prognostic gene signatures in different grades of gliomas: a retrospective study[J]. PEERJ,2021,9:23.
APA	Liu, Jieting.,Zhang, Hongrui.,Zhang, Jingyun.,Bing, Zhitong.,Wang, Yingbin.,...&Yang, Kehu.(2021).Identification of robust diagnostic and prognostic gene signatures in different grades of gliomas: a retrospective study.PEERJ,9,23.
MLA	Liu, Jieting,et al."Identification of robust diagnostic and prognostic gene signatures in different grades of gliomas: a retrospective study".PEERJ 9(2021):23.