[多分级胶质瘤异质性和免疫微环境的单细胞转录组分析揭示潜在预后生物标志物]

[Single-cell transcriptome analysis of multigrade glioma heterogeneity and immune microenvironment revealed potential prognostic biomarkers].

作者信息

Liu Jie, Xu Kailong, Ma Lixin, Wang Yang

机构信息

State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430062, Hubei, China.

出版信息

Sheng Wu Gong Cheng Xue Bao. 2022 Oct 25;38(10):3790-3808. doi: 10.13345/j.cjb.220481.

Abstract

Glioma, the most common intrinsic tumor of the central nervous system, is characterized by its high incidence and poor prognosis. The aim of this study was to identify differentially expressed genes (DEGs) between glioblastoma multiforme (GBM) and low-grade glioma (LGG) to explore prognostic factors of different grades of gliomas. Single-cell transcriptome sequencing data of gliomas were collected from the NCBI Gene Expression Omnibus (GEO), which included a total of 29 097 cell samples from three datasets. For the analysis of human gliomas of different grades, 21 071 cells were obtained by filtering, and 70 genes were screened from differentially expressed genes by gene ontology (GO) analysis, Kyoto encyclopedia of genes and genomes (KEGG) pathway analysis, from which the gene was focused by reviewing the literature. The TCGA-based gene expression profiling interactive analysis (GEPIA) database was used to explore the survival curves of genes in LGG and GBM, and the gene expression profiling interactive analysis and tumor immune estimation resource (TIMER) database was used to study the expression of key genes in gliomas of different grades, predicting biomarkers that were closely related to immunotherapy. The cBioPortal database was used to explore the relationship between expression and 25 immune checkpoints. Gene set enrichment analysis (GSEA) further identified pathways associated with central genes. Finally, the efficacy of biomarkers in prognosis and prediction was validated in the Chinese glioma genome atlas (CGGA). These results demonstrated that prognostic genes are associated with tumor proliferation and progression. Analysis of biological information and survival suggested that these genes might serve as a promising prognostic biomarker and as new targets for selecting therapeutic strategies.

摘要

胶质瘤是中枢神经系统最常见的原发性肿瘤,具有高发病率和预后差的特点。本研究旨在鉴定多形性胶质母细胞瘤(GBM)和低级别胶质瘤(LGG)之间的差异表达基因(DEG),以探索不同级别胶质瘤的预后因素。从NCBI基因表达综合数据库(GEO)收集胶质瘤的单细胞转录组测序数据,其中包括来自三个数据集的总共29097个细胞样本。为了分析不同级别的人类胶质瘤,通过筛选获得了21071个细胞,并通过基因本体论(GO)分析、京都基因与基因组百科全书(KEGG)通路分析从差异表达基因中筛选出70个基因,通过查阅文献对其中的基因进行了重点研究。基于TCGA的基因表达谱交互分析(GEPIA)数据库用于探索LGG和GBM中基因的生存曲线,基因表达谱交互分析和肿瘤免疫估计资源(TIMER)数据库用于研究不同级别胶质瘤中关键基因的表达,预测与免疫治疗密切相关的生物标志物。cBioPortal数据库用于探索基因表达与25种免疫检查点之间的关系。基因集富集分析(GSEA)进一步确定了与中心基因相关的通路。最后,在中国胶质瘤基因组图谱(CGGA)中验证了生物标志物在预后和预测方面的疗效。这些结果表明,预后基因与肿瘤增殖和进展相关。生物信息和生存分析表明,这些基因可能作为有前景的预后生物标志物以及选择治疗策略的新靶点。

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