1.Screening and validation of glucose metabolism genes in osteoarthritis
Kexin LIU ; Chao MA ; Kai LIU ; Maochen HAO ; Xingru WANG ; Lingting MENG ; Mei DONG ; Jianzhong WANG
Chinese Journal of Tissue Engineering Research 2025;29(20):4181-4189
BACKGROUND:Glucose metabolism plays a crucial role in maintaining the normal physiological function of the body.Glucose metabolism disorder can lead to a range of health problems.At present,the molecular mechanism of glucose metabolism and potential gene targets in osteoarthritis need to be further studied.OBJECTIVE:To analyze the genes related to glucose metabolism in osteoarthritis by bioinformatics methods,and to verify them by cell experiments in vitro,so as to provide new ideas for prevention and treatment of osteoarthritis from the perspective of glucose metabolism.METHODS:Differentially expressed genes and glucose metabolism related genes were screened out from GEO database and GeneCards database.The genes related to both osteoarthritis and glucose metabolism were obtained.Gene Ontology(GO)and Kyoto Encyclopedia of Genes and Genomes(KEGG)enrichment analysis were used to screen the functions and pathways of these genes.To further investigate the interactions between these genes,a protein-protein interaction network was constructed and computational methods using Cytoscape software were utilized to identify key genes(Hub genes)for osteoarthritis glucose metabolism.In addition,CIBERSORT algorithm was used to analyze immune cell infiltration in GSE98918 data set.Finally,the expression of Hub gene was verified by cell experiment in vitro.RESULTS AND CONCLUSION:A total of 134 osteoarthritis glucose metabolism-related genes were obtained.GO enrichment analysis showed that GO was mainly involved in the reaction of toxic substances,the positive regulation of inflammatory reaction,the reaction of lipopolysaccharide and so on.KEGG enrichment analysis showed that it was closely related to PI3K-Akt signaling pathway,interleukin-17 signaling pathway,and AGE-RAGE signaling pathway in diabetic complications.Macrophages,monocytes,resting natural killer cells,regulatory T cells,and CD8+T cells were the main infiltrating cells obtained by immune infiltration analysis.In vitro cell experiments showed that the expression of Hub genes SERPINF1,TAC1,GLUL,APOE,and TMEM176A in the experimental group was significantly different from that in the control group.The mRNA expression of HLA-DRA was not statistically significant.The results show that SERPINF1,TAC1,Glul,APOE,and TMEM176A may be the key genes of glucose metabolism in osteoarthritis,and may be potential new targets for the prevention and treatment of osteoarthritis.
2.Bioinformatics screening of key genes for endoplasmic reticulum stress in osteoarthritis and experimental validation
Maochen HAO ; Chao MA ; Kai LIU ; Kexin LIU ; Lingting MENG ; Xingru WANG ; Jianzhong WANG
Chinese Journal of Tissue Engineering Research 2025;29(26):5632-5641
BACKGROUND:Endoplasmic reticulum stress is closely associated with the occurrence and progression of osteoarthritis,but the key genes and regulatory mechanisms remain unclear.OBJECTIVE:Utilizing bioinformatics to identify crucial endoplasmic reticulum stress-related genes in osteoarthritis,followed by experimental validation in cell models,aiming to offer new strategies for the prevention and treatment of osteoarthritis from the perspective of endoplasmic reticulum stress.METHODS:Osteoarthritis-related dataset GSE55235 was downloaded from the GEO database.Differential genes in synovial tissue of osteoarthritis were obtained through WGCNA machine learning algorithm and intersected with endoplasmic reticulum stress-related genes from the GeneCard database to acquire differential endoplasmic reticulum stress-related genes in osteoarthritis(ERSDEGs).These genes underwent GO and KEGG enrichment analysis,construction of a protein-protein interaction network,and validation of diagnostic efficiency in external datasets.Human primary synovioblast model of osteoarthritis was constructed.The control group was not treated,and the experimental group received 20 ng/mL lipopolysaccharide to simulate osteoarthritic synoviocyte modeling.Real-time fluorescence quantitative PCR was then performed to validate the expression level of each differential gene followed by immune infiltration analysis.RESULTS AND CONCLUSION:A total of 27 key endoplasmic reticulum stress-related genes in osteoarthritis were identified.GO enrichment analysis revealed that these genes were mainly enriched in collagen metabolism,chemokine,antigen binding,and immunoglobulin receptor binding processes.KEGG analysis indicated that they were mainly enriched in pathways such as rheumatoid arthritis and relaxin signaling pathways.The protein-protein interaction network was constructed,and the top five genes with the highest scores were identified using the Degree algorithm in Cytoscape software,including matrix metallopeptidase 1,tumor necrosis factor ligand superfamily member 11,matrix metallopeptidase 9,collagen type 1 alpha 1,and chemokine C-X-C motif ligand 12.Immune infiltration analysis showed that immune cells were mainly distributed in M2 macrophages,chemokine C-X-C motif ligand 12 showed a significant positive correlation with resting mast cells(r=0.70,P<0.001)and a significant negative correlation with resting memory CD4+T cells(r=-0.72,P<0.001).Matrix metallopeptidase 9 showed a significant positive correlation with MO macrophages(r=0.94,P<0.001).Collagen type 1 alpha 1 was significantly positively correlated with resting NK cells(r=0.77,P<0.001)and MO macrophages(r=0.76,P<0.001).Receiver operator characteristic curve analysis in external datasets GSE77298 and GSE1919 showed that the five key genes had good disease prediction value.In vitro cell experiments demonstrated significant differences in the expression levels of matrix metallopeptidase 1,tumor necrosis factor ligand superfamily member 11,matrix metallopeptidase 9,and chemokine C-X-C motif ligand 12 in the osteoarthritic cell model compared to the control group.These results showed that the key genes related to endoplasmic reticulum stress in osteoarthritis,including matrix metallopeptidase 1,tumor necrosis factor ligand superfamily member 11,matrix metallopeptidase 9,and chemokine C-X-C motif ligand 12,influence the occurrence and development of osteoarthritis through the links of collagen degradation and immune regulation,which are expected to provide new insights into the targeted treatment of osteoarthritis.
3.Bioinformatics screening of key genes for endoplasmic reticulum stress in osteoarthritis and experimental validation
Maochen HAO ; Chao MA ; Kai LIU ; Kexin LIU ; Lingting MENG ; Xingru WANG ; Jianzhong WANG
Chinese Journal of Tissue Engineering Research 2025;29(26):5632-5641
BACKGROUND:Endoplasmic reticulum stress is closely associated with the occurrence and progression of osteoarthritis,but the key genes and regulatory mechanisms remain unclear.OBJECTIVE:Utilizing bioinformatics to identify crucial endoplasmic reticulum stress-related genes in osteoarthritis,followed by experimental validation in cell models,aiming to offer new strategies for the prevention and treatment of osteoarthritis from the perspective of endoplasmic reticulum stress.METHODS:Osteoarthritis-related dataset GSE55235 was downloaded from the GEO database.Differential genes in synovial tissue of osteoarthritis were obtained through WGCNA machine learning algorithm and intersected with endoplasmic reticulum stress-related genes from the GeneCard database to acquire differential endoplasmic reticulum stress-related genes in osteoarthritis(ERSDEGs).These genes underwent GO and KEGG enrichment analysis,construction of a protein-protein interaction network,and validation of diagnostic efficiency in external datasets.Human primary synovioblast model of osteoarthritis was constructed.The control group was not treated,and the experimental group received 20 ng/mL lipopolysaccharide to simulate osteoarthritic synoviocyte modeling.Real-time fluorescence quantitative PCR was then performed to validate the expression level of each differential gene followed by immune infiltration analysis.RESULTS AND CONCLUSION:A total of 27 key endoplasmic reticulum stress-related genes in osteoarthritis were identified.GO enrichment analysis revealed that these genes were mainly enriched in collagen metabolism,chemokine,antigen binding,and immunoglobulin receptor binding processes.KEGG analysis indicated that they were mainly enriched in pathways such as rheumatoid arthritis and relaxin signaling pathways.The protein-protein interaction network was constructed,and the top five genes with the highest scores were identified using the Degree algorithm in Cytoscape software,including matrix metallopeptidase 1,tumor necrosis factor ligand superfamily member 11,matrix metallopeptidase 9,collagen type 1 alpha 1,and chemokine C-X-C motif ligand 12.Immune infiltration analysis showed that immune cells were mainly distributed in M2 macrophages,chemokine C-X-C motif ligand 12 showed a significant positive correlation with resting mast cells(r=0.70,P<0.001)and a significant negative correlation with resting memory CD4+T cells(r=-0.72,P<0.001).Matrix metallopeptidase 9 showed a significant positive correlation with MO macrophages(r=0.94,P<0.001).Collagen type 1 alpha 1 was significantly positively correlated with resting NK cells(r=0.77,P<0.001)and MO macrophages(r=0.76,P<0.001).Receiver operator characteristic curve analysis in external datasets GSE77298 and GSE1919 showed that the five key genes had good disease prediction value.In vitro cell experiments demonstrated significant differences in the expression levels of matrix metallopeptidase 1,tumor necrosis factor ligand superfamily member 11,matrix metallopeptidase 9,and chemokine C-X-C motif ligand 12 in the osteoarthritic cell model compared to the control group.These results showed that the key genes related to endoplasmic reticulum stress in osteoarthritis,including matrix metallopeptidase 1,tumor necrosis factor ligand superfamily member 11,matrix metallopeptidase 9,and chemokine C-X-C motif ligand 12,influence the occurrence and development of osteoarthritis through the links of collagen degradation and immune regulation,which are expected to provide new insights into the targeted treatment of osteoarthritis.
4.Screening and validation of glucose metabolism genes in osteoarthritis
Kexin LIU ; Chao MA ; Kai LIU ; Maochen HAO ; Xingru WANG ; Lingting MENG ; Mei DONG ; Jianzhong WANG
Chinese Journal of Tissue Engineering Research 2025;29(20):4181-4189
BACKGROUND:Glucose metabolism plays a crucial role in maintaining the normal physiological function of the body.Glucose metabolism disorder can lead to a range of health problems.At present,the molecular mechanism of glucose metabolism and potential gene targets in osteoarthritis need to be further studied.OBJECTIVE:To analyze the genes related to glucose metabolism in osteoarthritis by bioinformatics methods,and to verify them by cell experiments in vitro,so as to provide new ideas for prevention and treatment of osteoarthritis from the perspective of glucose metabolism.METHODS:Differentially expressed genes and glucose metabolism related genes were screened out from GEO database and GeneCards database.The genes related to both osteoarthritis and glucose metabolism were obtained.Gene Ontology(GO)and Kyoto Encyclopedia of Genes and Genomes(KEGG)enrichment analysis were used to screen the functions and pathways of these genes.To further investigate the interactions between these genes,a protein-protein interaction network was constructed and computational methods using Cytoscape software were utilized to identify key genes(Hub genes)for osteoarthritis glucose metabolism.In addition,CIBERSORT algorithm was used to analyze immune cell infiltration in GSE98918 data set.Finally,the expression of Hub gene was verified by cell experiment in vitro.RESULTS AND CONCLUSION:A total of 134 osteoarthritis glucose metabolism-related genes were obtained.GO enrichment analysis showed that GO was mainly involved in the reaction of toxic substances,the positive regulation of inflammatory reaction,the reaction of lipopolysaccharide and so on.KEGG enrichment analysis showed that it was closely related to PI3K-Akt signaling pathway,interleukin-17 signaling pathway,and AGE-RAGE signaling pathway in diabetic complications.Macrophages,monocytes,resting natural killer cells,regulatory T cells,and CD8+T cells were the main infiltrating cells obtained by immune infiltration analysis.In vitro cell experiments showed that the expression of Hub genes SERPINF1,TAC1,GLUL,APOE,and TMEM176A in the experimental group was significantly different from that in the control group.The mRNA expression of HLA-DRA was not statistically significant.The results show that SERPINF1,TAC1,Glul,APOE,and TMEM176A may be the key genes of glucose metabolism in osteoarthritis,and may be potential new targets for the prevention and treatment of osteoarthritis.

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