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To investigate the potential mechanisms and related signaling pathways of mitophagy in the occurrence and development of autosomal dominant polycystic kidney disease (ADPKD) using bioinformatics techniques.
The gene expression omnibus (GEO) dataset GSE7869 was downloaded and processed. Differentially expressed genes (DEGs) were identified using the R limma package. Mitophagy-related genes were retrieved from the GeneCards database and intersected with the DEGs to obtain candidate genes. A protein-protein interaction (PPI) network was constructed using STRING, and core genes were identified in Cytoscape using the maximalclique centrality (MCC) algorithm. Gene set enrichment analysis (GSEA) was conducted based on albumin (ALB) expression levels, and R packages including clusterProfiler, ggplot2 and enrichplot were used to visualize and interpret the enrichment results.
A total of 248 DEGs were obtained, including 61 up-regulated and 187 down-regulated genes. After intersecting with mitophagy-related genes, 38 candidate DEGs were identified. ALB was identified as the core differentially expressed gene through PPI analysis and Cytoscape. GSEA results indicated that the mitophagy-related gene ALB may play a role in ADPKD by regulating pathways such as extracellular matrix (ECM)-receptor interaction and branched-chain amino acid (BCAA) metabolism, as well as biological processes including organic acid and amino acid metabolism and organization of collagen fibrils.
ALB expression levels were significantly associated with pathways including ECM-receptor interaction and branched-chain amino acid metabolism, as well as with biological processes such as organic acid and amino acid metabolism and organization of collagen fibrils. These findings suggest that ALB may be involved in the pathogenesis of ADPKD.
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| 科 Family | 属数 Number of genus | 种数 Number of species | 占总种数比例 Percentage of total species (%) | 属 Genus | 种数 Number of species | 占总种数比例 Percentage of total species (%) |
|---|---|---|---|---|---|---|
| 鹅膏菌科Amanitaceae | 2 | 11 | 5.26 | 鹅膏菌属 Amanita | 10 | 4.78 |
| 小菇科 Mycenaceae | 2 | 12 | 5.74 | 丝盖伞属 Inocybe | 5 | 2.39 |
| 多孔菌科 Polyporaceae | 8 | 14 | 6.70 | 蜡蘑属 Laccaria | 5 | 2.39 |
| 红菇科 Russulaceae | 3 | 23 | 11.00 | 小皮伞属 Marasmius | 6 | 2.87 |
| 小菇属 Mycena | 11 | 5.26 | ||||
| 光柄菇属 Pluteus | 5 | 2.39 | ||||
| 红菇属 Russula | 17 | 8.13 | ||||
| 栓菌属 Trametes | 5 | 2.39 |
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