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通过多组学分析鉴定胶质瘤预后及肿瘤微环境的PAN细胞焦亡相关预测因子

Identification of PANoptosis-related predictors for prognosis and tumor microenvironment by multiomics analysis in glioma.

作者信息

Sun Fengzeng, Liao Miaomiao, Tao Zi, Hu Ruiqi, Qin Jun, Tao Weiwei, Liu Wentong, Wang Yiqi, Pi Guoliang, Lei Junrong, Bao Wendai, Dong Zhiqiang

机构信息

College of Biomedicine and Health, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China.

Department of Neurosurgery, Taihe Hospital, Hubei University of Medicine, Shiyan, China.

出版信息

J Cancer. 2024 Mar 11;15(9):2486-2504. doi: 10.7150/jca.94200. eCollection 2024.

Abstract

PANoptosis is a newly described inflammatory programmed cell death, that highlights coordination between pyroptosis, apoptosis and necroptosis. However, the functions of PANoptosis-related genes in glioma progression still remain to be explored. This study aims to identify PANoptosis-related predictors that may be utilized for prognosis prediction and development of new therapeutic targets. Firstly, bulk and single-cell RNA-seq (scRNA-seq) data of glioma patients were extracted from TCGA, CGGA and GEO database. Genetic analysis indicates a considerably high mutation frequency of PANoptosis-related genes (PANRGs) in glioma. Consensus clustering was applied to reveal different subtypes of glioma based on PANRGs. Two PANoptosis subtypes with distinct prognostic and TME characteristics were identified. Then, with LASSO-Cox regression analysis, four PANoptosis-related predictors (MYBL2, TUBA1C, C21orf62 and KCNIP2) were determined from bulk and scRNA-seq analysis. Predictive PANRG score model was established with these predictors and its correlation with tumor microenvironment (TME) was investigated. The results showed that patients with low PANRG score, had higher infiltration of anti-tumor immune cells, higher MSI score and lower TIDE score, which are more likely to benefit from immunotherapy. Further analysis identified 16 potential drugs associated with PANoptosis-related predictors. Moreover, the expression levels of four PANoptosis-related predictors were examined in clinical samples and the results were consistent with those analyzed in the database. Besides, we also confirmed the biological functions of two oncogenic predictors (MYBL2 and TUBA1C) by cell experiments, which revealed that knockdown of MYBL2 or TUBA1C could significantly inhibit the proliferation and migration of glioma cells. These findings highlight the prognostic value and biological functions of PANRGs in glioma, which may provide valuable insights for individualized treatment.

摘要

PAN细胞焦亡是一种新描述的炎症程序性细胞死亡,它突出了细胞焦亡、凋亡和坏死性凋亡之间的协同作用。然而,PAN细胞焦亡相关基因在胶质瘤进展中的功能仍有待探索。本研究旨在识别可能用于预后预测和新治疗靶点开发的PAN细胞焦亡相关预测因子。首先,从TCGA、CGGA和GEO数据库中提取胶质瘤患者的批量和单细胞RNA测序(scRNA-seq)数据。基因分析表明,胶质瘤中PAN细胞焦亡相关基因(PANRGs)的突变频率相当高。应用一致性聚类基于PANRGs揭示胶质瘤的不同亚型。确定了具有不同预后和肿瘤微环境特征的两种PAN细胞焦亡亚型。然后,通过LASSO-Cox回归分析,从批量和scRNA-seq分析中确定了四个PAN细胞焦亡相关预测因子(MYBL2、TUBA1C、C21orf62和KCNIP2)。用这些预测因子建立了预测PANRG评分模型,并研究了其与肿瘤微环境(TME)的相关性。结果表明,PANRG评分低的患者具有更高的抗肿瘤免疫细胞浸润、更高的微卫星不稳定性(MSI)评分和更低的肿瘤免疫逃逸(TIDE)评分,更有可能从免疫治疗中获益。进一步分析确定了16种与PAN细胞焦亡相关预测因子相关的潜在药物。此外,在临床样本中检测了四个PAN细胞焦亡相关预测因子的表达水平,结果与数据库分析结果一致。此外,我们还通过细胞实验证实了两个致癌预测因子(MYBL2和TUBA1C) 的生物学功能, 结果显示敲低MYBL2或TUBA1C可显著抑制胶质瘤细胞的增殖和迁移。这些发现突出了PANRGs在胶质瘤中的预后价值和生物学功能,可能为个体化治疗提供有价值的见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4daf/10988298/003bed2cbefe/jcav15p2486g001.jpg

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