结合机器学习和生物信息学分析,探讨脂质代谢相关基因和免疫微环境在牙周炎中的作用。

IF 3.9 2区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES
Lulu Wei, Miaomiao Chen, Xin Shi, Yibing Wang, Shengwei Yang
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引用次数: 0

摘要

牙周炎是一种常见的炎症性疾病,会影响牙齿周围和支撑牙齿的组织,如果不及时治疗,最终会导致牙齿脱落。本研究旨在探讨脂质代谢相关基因(LMRGs)的诊断潜力,并表征牙周炎的免疫微环境景观。差异表达分析鉴定了差异表达的LMRGs (DELMRGs),随后进行功能富集分析以阐明其生物学功能。使用随机森林、最小绝对收缩和选择算子(LASSO)回归和XGBoost来识别枢纽delmrg。使用受试者工作特征(ROC)曲线评估这些基因的诊断性能。采用ImmuCellAI和GSVA分别分析免疫细胞浸润和免疫功能状态。单细胞RNA测序(scRNA-seq)用于解码牙周炎单细胞分辨率下的免疫微环境和细胞通讯网络。机器学习方法揭示了五个轮毂LMRGs: FABP4、CWH43、CLN8、ADGRF5和OSBPL6。ADGRF5和FABP4在牙周炎样品中显著上调,而CWH43、CLN8和OSBPL6下调。综合LMRGs评分具有较好的诊断效果,曲线下面积(AUC)为0.954。免疫细胞浸润分析显示牙周炎患者LMRGs评分与各种T细胞亚群之间存在显著正相关。GSVA表明在牙周炎中激活抗原呈递过程和多种免疫相关途径。scRNA-seq描述了8种不同的细胞类型,关键LMRGs在不同细胞类型中表达差异。细胞通讯分析强调了MHC-II、CXCL和ADGRE5信号通路介导的显著相互作用。单核细胞和多能祖细胞(MPPs)主要参与炎症反应。对单核细胞异质性的进一步分析确定了五个具有不同作用的单核细胞簇,包括免疫和炎症反应激活以及与细胞增殖和代谢相关的途径。综上所述,综合LMRGs评分反映了脂质代谢的作用,是一种很有前景的牙周炎诊断生物标志物。此外,详细的免疫细胞浸润和单细胞分析强调了免疫微环境在牙周炎发病机制中的关键作用。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Exploring the role of lipid metabolism related genes and immune microenvironment in periodontitis by integrating machine learning and bioinformatics analysis.

Periodontitis is a common inflammatory disease affecting the tissues surrounding and supporting the teeth, ultimately leading to tooth loss if left untreated. This study aimed to investigate the diagnostic potential of lipid metabolism-related genes (LMRGs) and characterize the immune microenvironment landscape in periodontitis. Differential expression analysis identified differentially expressed LMRGs (DELMRGs), followed by functional enrichment analyses to elucidate their biological functions. Hub DELMRGs were identified using Random Forest, least absolute shrinkage and selection operator (LASSO) regression, and XGBoost. The diagnostic performance of these genes was assessed using receiver operating characteristic (ROC) curves. Immune cell infiltration and immune function status were analyzed using ImmuCellAI and Gene Set Variation Analysis (GSVA), respectively. Single-cell RNA sequencing (scRNA-seq) was employed to decode the immune microenvironment and cell communication networks at single-cell resolution in periodontitis. Machine learning approaches revealed five hub LMRGs: FABP4, CWH43, CLN8, ADGRF5, and OSBPL6. ADGRF5 and FABP4 were significantly upregulated in periodontitis samples, while CWH43, CLN8, and OSBPL6 were downregulated. The combined LMRGs score exhibited excellent diagnostic performance with an area under the curve (AUC) of 0.954. Immune cell infiltration analysis unveiled significant positive correlations between LMRGs score and various T cell subsets in periodontitis. GSVA indicated activation of antigen presentation processes and multiple immune-related pathways in periodontitis. scRNA-seq delineated eight distinct cell types, with key LMRGs differentially expressed across cell types. Cell communication analysis highlighted significant interactions mediated by MHC-II, CXCL, and ADGRE5 signaling pathways. Monocytes and multipotent progenitor cells (MPPs) primarily contributed to the inflammatory response. Further analysis of monocyte heterogeneity identified five monocyte clusters with distinct roles, including immune and inflammatory response activation and pathways related to cell proliferation and metabolism.In summary, the integrated LMRGs score, which reflects lipid metabolism's role, represents a promising diagnostic biomarker for periodontitis. Additionally, detailed immune cell infiltration and single-cell analyses underscored the critical role of the immune microenvironment in periodontitis pathogenesis.

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来源期刊
Scientific Reports
Scientific Reports Natural Science Disciplines-
CiteScore
7.50
自引率
4.30%
发文量
19567
审稿时长
3.9 months
期刊介绍: We publish original research from all areas of the natural sciences, psychology, medicine and engineering. You can learn more about what we publish by browsing our specific scientific subject areas below or explore Scientific Reports by browsing all articles and collections. Scientific Reports has a 2-year impact factor: 4.380 (2021), and is the 6th most-cited journal in the world, with more than 540,000 citations in 2020 (Clarivate Analytics, 2021). •Engineering Engineering covers all aspects of engineering, technology, and applied science. It plays a crucial role in the development of technologies to address some of the world''s biggest challenges, helping to save lives and improve the way we live. •Physical sciences Physical sciences are those academic disciplines that aim to uncover the underlying laws of nature — often written in the language of mathematics. It is a collective term for areas of study including astronomy, chemistry, materials science and physics. •Earth and environmental sciences Earth and environmental sciences cover all aspects of Earth and planetary science and broadly encompass solid Earth processes, surface and atmospheric dynamics, Earth system history, climate and climate change, marine and freshwater systems, and ecology. It also considers the interactions between humans and these systems. •Biological sciences Biological sciences encompass all the divisions of natural sciences examining various aspects of vital processes. The concept includes anatomy, physiology, cell biology, biochemistry and biophysics, and covers all organisms from microorganisms, animals to plants. •Health sciences The health sciences study health, disease and healthcare. This field of study aims to develop knowledge, interventions and technology for use in healthcare to improve the treatment of patients.
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