Comprehensive Analysis of ceRNA Network and Immune Cell Infiltration Pattern of Autophagy-Related Genes in IgA Nephropathy

• Published in: Kidney & blood pressure research Vol. 49; no. 1; pp. 528 - 1
• Main Authors: Zhang, Huaying, Lu, Huiai, Zhan, Bicui, Shi, He, Shui, Bingjie
• Format: Journal Article
• Language: English
• Published: Switzerland Karger Publishers 01.01.2024
• Subjects: autophagy; Autophagy - genetics; competing endogenous rna; Gene Regulatory Networks; Glomerulonephritis, IGA - genetics; Humans; immune cell; immunoglobulin a nephropathy; MicroRNAs - genetics; Protein Interaction Maps; RNA, Competitive Endogenous; Immunoglobulin A nephropathy; Autophagy; Competing endogenous RNA; Immune cell
• ISSN: 1420-4096; 1423-0143; 1423-0143
• DOI: 10.1159/000539571

IgA nephropathy (IgAN) is a prevalent worldwide glomerular disease with a complex pathophysiology that has significant economic implications. Despite the lack of successful research, this study aims to discover the potential competing endogenous RNA (ceRNA) network of autophagy-associated genes in IgAN and examine their correlation with immune cell infiltration. Autophagy-related hub genes were discovered by assessing the GSE116626 dataset and constructing a protein-protein interaction network. Nephroseq v5 analysis engine was used to analyze correlations between hub genes and proteinuria, glomerular filtration rate (GFR), and serum creatinine levels. Then, a ceRNA network construction and the CIBERSORT tool for immune cell infiltration analysis were also performed. Additionally, the differentially expressed autophagy-related genes were used to predict potential targeted medications for IgAN. Overall, 1,396 differentially expressed genes were identified in IgAN along with 25 autophagy-related differentially expressed messenger RNAs. Enrichment analysis revealed significant involvement of autophagy and apoptosis in biological processes. Next, we evaluated the top hub nodes based on their highest degrees. The ability of IgAN discrimination was confirmed in the GSE35487 and GSE37460 datasets by validating the five hub genes: SIRT1, FOS, CCL2, CDKN1A, and MYC. In the Nephroseq v5 analysis engine, the clinical correlation of the five hub genes was confirmed. Furthermore, the ceRNA network identified 18 circular RNAs and 2 microRNAs associated with hub autophagy-related genes in IgAN. Our investigation identified hsa-miR-32-3p and hsa-let-7i-5p as having elevated expression levels and substantial diagnostic value. Finally, four distinctively infiltrated immune cells were found to be associated with the hub autophagy-related genes, and 67 drugs were identified as potential therapeutic options for IgAN. This study sheds light on a novel ceRNA regulatory network mechanism associated with autophagy in IgAN development.