Analysis of differentially expressed genes of Alzheimer's disease based on GEO database and prediction of therapeutic chinese medicine

  • LIU Yanyun ,
  • TANG Xiaowei ,
  • WANG Yang ,
  • CAO Minggang ,
  • ZHOU Aimin ,
  • ZHANG Juan
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  • 1. Anhui College of Chinese Medicine, Wuhu 241002, China;
    2. The First Affiliated Hospital of Anhui University of Chinese Medicine

Received date: 2024-05-31

  Online published: 2025-05-14

Abstract

Objective:To obtain the differential genes of Alzheimer's disease (AD) by bioinformatics methods, and to predict the potential traditional Chinese medicines, components and targets for the treatment of AD. Methods: The AD gene chip data GSE129055 was downloaded from the GEO database. The differentially expressed genes in the data set were screened and the differentially expressed mRNAs were analyzed by gene ontology function (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis. The target genes of miRNAs were predicted by TargetScan database and the miRNA-mRNA network was constructed. The top 50% mRNA of Degree value in miRNA-mRNA network was imported into Coremine Medical platform to screen potential therapeutic Chinese medicine. The TCMSP platform was used to screen the components and targets of potential Chinese medicines acting on differentially expressed mRNAs. The two were combined to construct a drug-component-mRNA-miRNA co-expression network for Chinese medicine treatment of AD and molecular docking verification was performed. Results: A total of 178 differentially expressed mRNAs and 96 differentially expressed miRNAs were screened in the GSE129055 data set. Through screening, it was found that the commonly used traditional Chinese medicines acting on differentially expressed mRNAs were ginseng, salvia miltiorrhiza, scutellaria baicalensis, cordyceps sinensis, schisandra chinensis, etc. The key active ingredients were levoshansophorin and β-sitosterol. The key targets were μ-opioid receptor gene (OPRM1) and 5-hydroxytryptamine receptor subunit 3A positive inhibitory neuron (HTR3A), and the key miRNAs were miR-9-3p and miR-3607-3p. The results of molecular docking showed that the key active components could bind to the key targets and showed good affinity. Conclusion: The expression of multiple genes in hippocampus of AD rats is different. At the same time, traditional Chinese medicine has the characteristics of multi-component and multi-target in the treatment of AD. It can play a neuroprotective role by neuropeptides, biogenic amines and reducing neuroinflammation.

Cite this article

LIU Yanyun , TANG Xiaowei , WANG Yang , CAO Minggang , ZHOU Aimin , ZHANG Juan . Analysis of differentially expressed genes of Alzheimer's disease based on GEO database and prediction of therapeutic chinese medicine[J]. Journal of Baotou Medical College, 2025 , 41(4) : 16 -22 . DOI: 10.16833/j.cnki.jbmc.2025.04.004

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