Fumin Zheng1, Guangtian Chen2, Hui Deng1. 1. Department of Periodontics, School and Hospital of Stomatology, Wenzhou Medical University Xueyuan West Road, Lucheng District, Wenzhou 325027, Zhejiang, P. R. China. 2. Department of Stomatology, The First Affiliated Hospital of Wenzhou Medical University Nanbaixiang Ouhai District, Wenzhou 325000, Zhejiang, P. R. China.
Abstract
OBJECTIVE: The objective of this study was to detect the undiscovered bioinformatics information about hereditary gingival fibromatosis and find focuses from published datasets. METHODS: Two published datasets containing gingival tissue expression profiles of HGF and healthy groups were collected from GEO database. GSE4250 was utilized for cardinality analysis, including the differentially expressed gene analysis, enrichment analyses, hierarchical clustering analysis, and protein-protein interaction network. Key genes were obtained from the protein interaction network plot. GSE58482 was utilized for validation. RESULTS: Analysis of the expression profiling by array, there were 785 genes (380 upregulated genes, 405 downregulated genes) expressed differentially between HGF gingival tissue and healthy gingival tissue. KEGG and GO enrichment analyses obtained candidate pathways. Differentially expressed genes were associated with activated pathways like skin barrier pathway and cornified envelope pathway. Repressed pathways included ion homeostasis pathway, receptor ligand activity pathway, and cell population proliferation pathway. Key genes such as F2R, TGM7, and MMP13 were confirmed with differential expression by external validation. CONCLUSION: By bioinformatics approaches, we found new discoveries including several pathways and key genes. These discoveries deserve attention and research in the future. AJTR
OBJECTIVE: The objective of this study was to detect the undiscovered bioinformatics information about hereditary gingival fibromatosis and find focuses from published datasets. METHODS: Two published datasets containing gingival tissue expression profiles of HGF and healthy groups were collected from GEO database. GSE4250 was utilized for cardinality analysis, including the differentially expressed gene analysis, enrichment analyses, hierarchical clustering analysis, and protein-protein interaction network. Key genes were obtained from the protein interaction network plot. GSE58482 was utilized for validation. RESULTS: Analysis of the expression profiling by array, there were 785 genes (380 upregulated genes, 405 downregulated genes) expressed differentially between HGF gingival tissue and healthy gingival tissue. KEGG and GO enrichment analyses obtained candidate pathways. Differentially expressed genes were associated with activated pathways like skin barrier pathway and cornified envelope pathway. Repressed pathways included ion homeostasis pathway, receptor ligand activity pathway, and cell population proliferation pathway. Key genes such as F2R, TGM7, and MMP13 were confirmed with differential expression by external validation. CONCLUSION: By bioinformatics approaches, we found new discoveries including several pathways and key genes. These discoveries deserve attention and research in the future. AJTR
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