肺腺癌中二硫键相关基因的分子图谱:免疫微环境和预后的角度。
Molecular map of disulfidptosis-related genes in lung adenocarcinoma: the perspective toward immune microenvironment and prognosis.
机构信息
Department of Thoracic Surgery, The Second Hospital of Hebei Medical University, Shijiazhuang, 050000, Hebei, People's Republic of China.
Department of Radiation Oncology, Affiliated Hospital of Hebei University, Baoding, 071000, Hebei, People's Republic of China.
出版信息
Clin Epigenetics. 2024 Feb 11;16(1):26. doi: 10.1186/s13148-024-01632-y.
BACKGROUND
Disulfidptosis is a recently discovered form of programmed cell death that could impact cancer development. Nevertheless, the prognostic significance of disulfidptosis-related genes (DRGs) in lung adenocarcinoma (LUAD) requires further clarification.
METHODS
This study systematically explores the genetic and transcriptional variability, prognostic relevance, and expression profiles of DRGs. Clusters related to disulfidptosis were identified through consensus clustering. We used single-sample gene set enrichment analysis and ESTIMATE to assess the tumor microenvironment (TME) in different subgroups. We conducted a functional analysis of differentially expressed genes between subgroups, which involved gene ontology, the Kyoto encyclopedia of genes and genomes, and gene set variation analysis, in order to elucidate their functional status. Prognostic risk models were developed using univariate Cox regression and the least absolute shrinkage and selection operator regression. Additionally, single-cell clustering and cell communication analysis were conducted to enhance the understanding of the importance of signature genes. Lastly, qRT-PCR was employed to validate the prognostic model.
RESULTS
Two clearly defined DRG clusters were identified through a consensus-based, unsupervised clustering analysis. Observations were made concerning the correlation between changes in multilayer DRG and various clinical characteristics, prognosis, and the infiltration of TME cells. A well-executed risk assessment model, known as the DRG score, was developed to predict the prognosis of LUAD patients. A high DRG score indicates increased TME cell infiltration, a higher mutation burden, elevated TME scores, and a poorer prognosis. Additionally, the DRG score showed a significant correlation with the tumor mutation burden score and the tumor immune dysfunction and exclusion score. Subsequently, a nomogram was established for facilitating the clinical application of the DRG score, showing good predictive ability and calibration. Additionally, crucial DRGs were further validated by single-cell sequencing data. Finally, crucial DRGs were further validated by qRT-PCR and immunohistochemistry.
CONCLUSION
Our new DRG signature risk score can predict the immune landscape and prognosis of LUAD. It also serves as a reference for LUAD's immunotherapy and chemotherapy.
背景
二硫键程序性细胞死亡是一种新发现的细胞程序性死亡形式,可能会影响癌症的发展。然而,二硫键程序性细胞死亡相关基因(DRGs)在肺腺癌(LUAD)中的预后意义仍需进一步阐明。
方法
本研究系统地探讨了 DRGs 的遗传和转录变异性、预后相关性和表达谱。通过共识聚类识别与二硫键程序性细胞死亡相关的聚类。我们使用单样本基因集富集分析和 ESTIMATE 评估不同亚组的肿瘤微环境(TME)。我们对亚组间差异表达基因进行了功能分析,包括基因本体、京都基因与基因组百科全书和基因集变异分析,以阐明其功能状态。使用单因素 Cox 回归和最小绝对收缩和选择算子回归建立预后风险模型。此外,还进行了单细胞聚类和细胞通讯分析,以增强对特征基因重要性的理解。最后,通过 qRT-PCR 验证了预后模型。
结果
通过基于共识的无监督聚类分析,确定了两个明确界定的 DRG 聚类。观察到多层 DRG 变化与各种临床特征、预后和 TME 细胞浸润之间的相关性。建立了一种称为 DRG 评分的良好风险评估模型,用于预测 LUAD 患者的预后。高 DRG 评分表明 TME 细胞浸润增加、突变负担增加、TME 评分升高和预后较差。此外,DRG 评分与肿瘤突变负担评分和肿瘤免疫功能障碍和排斥评分显著相关。随后,建立了列线图以促进 DRG 评分的临床应用,显示出良好的预测能力和校准度。此外,还通过单细胞测序数据进一步验证了关键 DRGs。最后,通过 qRT-PCR 和免疫组织化学进一步验证了关键 DRGs。
结论
我们的新 DRG 特征风险评分可预测 LUAD 的免疫景观和预后。它也为 LUAD 的免疫治疗和化疗提供了参考。