Z-T Rao1, S-Q Wang, J-Q Wang. 1. Department of Orthopaedic Surgery, Tongji Hospital, Tongji University School of Medicine, Shanghai, China. wshumotion@163.com.
Abstract
OBJECTIVE: Osteoarthritis (OA) is a most common chronic degenerative joint lesion, which affects both cartilage and bone. A better understanding of the gene expression profiling of OA may help understanding the pathogenesis of OA and finding the therapy targets for OA treatment. MATERIALS AND METHODS: GSE8077 was downloaded from Gene Expression Omnibus (GEO) including 5 OA rats induced by anterior cruciate ligament transection and partial medial meniscectomy and 5 rats that were performed sham surgery as control. Differentially expressed genes (DEGs) between OA group and control group were identified by t-test with p < 0.05 and the coding genes that transcription factors corresponded were screened by TRANSFAC. Then Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis for DEGs and transcription factors were performed. The DEGs and transcription factors were integrated with information from STRING database to construct PPI network. RESULTS: A total of 119 up-regulated genes, 39 down-regulated genes and 9 transcription factors were identified in OA sample. The GO enrichment analysis showed that 119 up-regulated genes were significantly enriched in blood vessel development and KEGG pathway enrichment showed that genes were involved in circadian rhythm pathway. In the PPI network, Cd44, Mmp13, Timp1 and Igf1 showed higher degrees. CONCLUSIONS: The screened genes could provide a new and comprehensive view for treatment of OA.
OBJECTIVE:Osteoarthritis (OA) is a most common chronic degenerative joint lesion, which affects both cartilage and bone. A better understanding of the gene expression profiling of OA may help understanding the pathogenesis of OA and finding the therapy targets for OA treatment. MATERIALS AND METHODS:GSE8077 was downloaded from Gene Expression Omnibus (GEO) including 5 OA rats induced by anterior cruciate ligament transection and partial medial meniscectomy and 5 rats that were performed sham surgery as control. Differentially expressed genes (DEGs) between OA group and control group were identified by t-test with p < 0.05 and the coding genes that transcription factors corresponded were screened by TRANSFAC. Then Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis for DEGs and transcription factors were performed. The DEGs and transcription factors were integrated with information from STRING database to construct PPI network. RESULTS: A total of 119 up-regulated genes, 39 down-regulated genes and 9 transcription factors were identified in OA sample. The GO enrichment analysis showed that 119 up-regulated genes were significantly enriched in blood vessel development and KEGG pathway enrichment showed that genes were involved in circadian rhythm pathway. In the PPI network, Cd44, Mmp13, Timp1 and Igf1 showed higher degrees. CONCLUSIONS: The screened genes could provide a new and comprehensive view for treatment of OA.