Bioinformatics Analysis Of Hub Genes And Pathways In Congenital Hypothyroidism

Abstract

Abstract Background: We have found hub genes and dysregulation pathways in congenital hypothyroidism (CH). Methods: We found the required samples from the GEO and UCSC Xena databases respectively. The limma and pheatmap packages in R were used for differential gene searching and volcano and heat map mapping. The R package was used to generate GO enrichment analysis plots. Protein interaction network analysis was performed on the dataset through the STRING website, and a confidence level of 0.4 was selected to obtain the protein interaction relationships, and the interaction relationship data were downloaded; First, the genes with the top 20 expressions were screened by R as the core gene set gene1, and secondly, the data were then imported into Cytoscape, manually delete the outlier data, and use the algorithm in cytoHubba to screen out the core gene set gene2, and finally take the intersection of the two parts of gene set gene1 and gene2 obtained earlier by using jvenn to the final hub genes were obtained. Subsequently, Cytoscape was used to map the co-expression network of hub genes with other genes. The WGCNA package in R was used to perform WGCNA analysis on the differential data, and the selected hub genes were tagged, and then Cytoscape was used to map the co-expression network of the hub genes with other genes. Results: We identified a total of 250 DEGs, of which 174 genes were up-regulated and 76 genes were down-regulated. GO enrichment analysis showed that CH DEGs were significantly enriched in the trans-Golgi network and the Golgi apparatus subcompartment. The PPI network of the hub DEG has 209 nodes and 257 edges.WGCNA analysis showed that most of the genes were clustered in three major modules and confirmed by experimental analysis that there were close interactions between the screened hub genes, which were all clustered in the same module (blue module). Conclusion: HSPB1, PABPC1, and APP - these three hub genes are closely associated with the occurrence of congenital hypothyroidism and may influence the synthesis and secretion of T3 and T4 by affecting the synthesis of proteins in the Golgi apparatus of thyroid cells.