Development of a novel immune infiltration-related diagnostic model for Alzheimer’s disease using bioinformatic strategies

Abstract

BackgroundThe pathogenesis of Alzheimer’s disease (AD) is complex and multi-factorial. Increasing evidence has shown the important role of immune infiltration in AD. Thus the current study was designed to identify immune infiltration-related genes and to explore their diagnostic value in AD.MethodsThe expression data of AD patients were downloaded from the GEO database. The limma R package identified differentially expressed genes (DEGs) between AD and controls. The CIBERSORT algorithm identified differentially infiltrated immune cells (DIICs) between AD and controls. DIIC-correlated DEGs were obtained by Pearson correlation analysis. WGCNA was employed to identify DIIC-related modules. Next, LASSO, RFE, and RF machine learning methods were applied to screen robust DIIC-related gene signatures in AD, followed by the construction and validation of a diagnostic nomogram. Detection of the expression of related genes in the peripheral blood of Alzheimer’s disease and healthy volunteers by RT-PCR. In addition, the CTD database predicted chemicals targeting DIIC-related gene signatures in the treatment of AD.ResultsNK cells, M0 macrophages, activated myeloid dendritic cells, resting mast cells, CD8+ T cells, resting memory CD4+ T cells, gamma delta T cells, and M2 macrophages were differentially infiltrated between AD and controls. Pearson analysis identified a total of 277 DIIC-correlated DEGs between AD and controls. Thereafter, 177 DIIC-related genes were further obtained by WGCNA analysis. By LASSO, RFE and RF algorithms, CMTM2, DDIT4, LDHB, NDUFA1, NDUFB2, NDUFS5, RPL17, RPL21, RPL26 and NDUFAF2 were identified as robust gene signature in AD. The results of RT-PCR detection of peripheral blood samples from Alzheimer’s disease and healthy volunteers showed that the expression trend of ten genes screened was consistent with the detection results; among them, the expression levels of CMTM2, DDIT4, LDHB, NDUFS5, and RPL21 are significantly different among groups. Thus, a diagnostic nomogram based on a DIIC-related signature was constructed and validated. Moreover, candidate chemicals targeting those biomarkers in the treatment of AD, such as 4-hydroxy-2-nonenal, rosiglitazone, and resveratrol, were identified in the CTD database.ConclusionFor the first time, we identified 10 immune infiltration-related biomarkers in AD, which may be helpful for the diagnosis of AD and provide guidance in the treatment of AD.

Analysis of the mechanism of fibrauretine alleviating Alzheimer's disease based on transcriptomics and proteomics

“…Modern studies have shown that there is a link between Th, Scg2, Rpl17, Chl1, Alb and AD [ 15 - 19 ], SPP1, Th, Prex2 play a role in a variety of diseases by regulating the PI3K-AKT signaling pathway [ 20 - 23 ]. In the transcriptome sequencing, the KEGG enrichment analysis of differentially expressed genes was significantly enriched in the PI3K-AKT signaling pathway.…”

A review and analysis of key biomarkers in Alzheimer’s disease

“…An AD immune-related ceRNA network was generated using tools such as StarBase, DiANA-LncBase, and the Human MicroRNA Disease Database (HMDD). Zhuang et al (2023) used the CIBERSORT algorithm to identify differentially infiltrated immune cells (DIICs). Ten biomarkers associated with AD immune infiltration were identified by WGCNA and machine learning algorithms.…”