Screening and bioinformatics analysis of differentially expressed genes reveals DAPLI as a critical regulatory gene in the substantia nigra of patients with Parkinson's disease based on GEO database
Objective: To investigate the screening of differential genes in the substantia nigra of Patients with Parkinson's disease and their related signaling pathways and biological processes, to provide clues for subsequent experimental verification studies. Methods: (1) In the GEO (Gene Expression O...
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| Published in: | Revista de psiquiatria clínica Vol. 50; no. 6; p. 127 |
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| Main Authors: | , , |
| Format: | Journal Article |
| Language: | English |
| Published: |
Universidade de Sao Paulo, Facultade de Medicina
01-11-2023
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| Subjects: | |
| Online Access: | Get full text |
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| Summary: | Objective: To investigate the screening of differential genes in the substantia nigra of Patients with Parkinson's disease and their related signaling pathways and biological processes, to provide clues for subsequent experimental verification studies. Methods: (1) In the GEO (Gene Expression Omnibus) database, the data set of substantia nigra and Parkinson's disease were retrieved, and the R language was used to analyze the chip data. The differential genes between different chip datasets were intersected to obtain the common difference genes. GO and KEGG enrichment analysis were applied by Cytoscape. The String database and GeneMANIA online database was used for protein-protein interaction (PPI) network analysis. The LOSSS database were used to analyze the most promising hub genes. Treefam and Aminode was used to analyze their gene family conservatism. The human protein atlas database analyzed their expression distribution in normal brain tissue. Results In this study, 45 co-differentiated genes were obtained from the two datasets. GO and KEGG analysis revealed that these genes were enriched in the regulation of synapse organizations, and Serotonergic synapse, et al. PPI showed 20 nodes and 22 protein interactions. Finally, 2 co-differential genes, DAPL1 and SLC2A13, were obtained through intersection with the DISEASES database. Treefam and Aminode analysis further showed that DAPL1 was genetically and proteinally conserved across species and was primarily expressed in the normal hypothalamus, midbrain, and cortex. DAPL1 was also significantly low expression in the validation set GSE49036 in the substantia substantia of patients with Parkinson's disease, and the PPI network shows that its role may be closely related to the binding of the death domain. Conclusion Based on geo database, DAPL1, a key gene involved in the occurrence and development of Parkinson's disease, was screened by bioinformatics, and data support was needed for further research. Keywords: Parkinson's disease, substantia nigra, DAPL1, bioinformatics, GEO |
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| ISSN: | 0101-6083 |
| DOI: | 10.15761/0101-60830000000718 |