Integrated bioinformatics analysis identifies autophagy-associated genes as candidate biomarkers and reveals the immune infiltration landscape in psoriasis.

IF 3.3 4区 医学 Q3 IMMUNOLOGY
Autoimmunity Pub Date : 2024-12-01 Epub Date: 2024-03-04 DOI:10.1080/08916934.2023.2259137
Sixian Bai, Hongyu Cheng, Hao Li, Peng Bo
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引用次数: 0

Abstract

Autophagy is implicated in the pathogenesis of psoriasis. We aimed to identify autophagy-related biomarkers in psoriasis via an integrated bioinformatics approach. We downloaded the gene expression profiles of GSE30999 dataset, and the "limma" package was applied to identify differentially expressed genes (DEGs). Then, differentially expressed autophagy-related genes (DEARGs) were identified via integrating autophagy-related genes with DEGs. CytoHubba plugin was used for the identification of hub genes and verified by the GSE41662 dataset. Subsequently, a series of bioinformatics analyses were employed, including protein-protein interaction network, functional enrichment, spearman correlation, receiver operating characteristic, and immune infiltration analyses. One hundred and one DEARGs were identified, and seven DEARGs were identified as hub genes and verified using the GSE41662 dataset. These validated genes had good diagnostic value in distinguishing psoriasis lesions. Immune infiltration analysis indicated that ATG5, SQSTM1, EGFR, MAPK8, MAPK3, MYC, and PIK3C3 were correlated with infiltration of immune cells. Seven DEARGs, namely ATG5, SQSTM1, EGFR, MAPK8, MAPK3, MYC, and PIK3C3, may be involved in the pathogenesis of psoriasis, which expanded the understanding of the development of psoriasis and provided important clinical significance for treatment of this disease.

综合生物信息学分析确定了作为候选生物标记物的自噬相关基因,并揭示了银屑病的免疫浸润情况。
自噬与银屑病的发病机制有关。我们的目的是通过综合生物信息学方法确定银屑病中与自噬相关的生物标志物。我们下载了 GSE30999 数据集的基因表达谱,并使用 "limma "软件包识别差异表达基因(DEGs)。然后,通过整合自噬相关基因和 DEGs,确定了差异表达的自噬相关基因(DEARGs)。鉴定中枢基因时使用了 CytoHubba 插件,并通过 GSE41662 数据集进行了验证。随后进行了一系列生物信息学分析,包括蛋白-蛋白相互作用网络、功能富集、矛曼相关性、接收者操作特征和免疫浸润分析。结果发现了 101 个 DEARGs,其中 7 个 DEARGs 被确定为枢纽基因,并通过 GSE41662 数据集进行了验证。这些经过验证的基因在区分银屑病皮损方面具有良好的诊断价值。免疫浸润分析表明,ATG5、SQSTM1、表皮生长因子受体、MAPK8、MAPK3、MYC 和 PIK3C3 与免疫细胞的浸润相关。ATG5、SQSTM1、表皮生长因子受体(EGFR)、MAPK8、MAPK3、MYC和PIK3C3这7个DEARGs可能参与了银屑病的发病机制,这拓展了人们对银屑病发病机制的认识,并为银屑病的治疗提供了重要的临床意义。
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来源期刊
Autoimmunity
Autoimmunity 医学-免疫学
CiteScore
5.70
自引率
8.60%
发文量
59
审稿时长
6-12 weeks
期刊介绍: Autoimmunity is an international, peer reviewed journal that publishes articles on cell and molecular immunology, immunogenetics, molecular biology and autoimmunity. Current understanding of immunity and autoimmunity is being furthered by the progress in new molecular sciences that has recently been little short of spectacular. In addition to the basic elements and mechanisms of the immune system, Autoimmunity is interested in the cellular and molecular processes associated with systemic lupus erythematosus, rheumatoid arthritis, Sjogren syndrome, type I diabetes, multiple sclerosis and other systemic and organ-specific autoimmune disorders. The journal reflects the immunology areas where scientific progress is most rapid. It is a valuable tool to basic and translational researchers in cell biology, genetics and molecular biology of immunity and autoimmunity.
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