Bioinformatics Identification and Experimental Verification of Disulfidptosis-Related Genes in the Progression of Osteoarthritis
Abstract
:1. Introduction
2. Materials and Methods
2.1. Data Sources
2.2. Identification of Differentially Expressed DRGs (DE-DRGs)
2.3. Function Analysis
2.4. Machine Learning
2.5. Identification of Hub Genes and Nomogram Construction
2.6. Analysis of Immune Cell Infiltration
2.7. Single-Cell Analysis
2.8. Chondrocyte Culture, Treatment, and Small Interfering RNA (siRNA) Transfection
2.9. Quantitative Polymerase Chain Reaction (qPCR)
2.10. Protein Extraction and Western Blot
2.11. Statistical Analysis
3. Results
3.1. Identification of Six DE-DRGs
3.2. Definition of Hub Genes: SLC3A2 and PDLIM1
3.3. Evaluation of the Nomogram Model’s Forecasting Accuracy
3.4. Single-Gene GSEA Analysis: SLC3A2 and PDLIM1
3.5. Identification of Three Types of Differential Immune Cells
3.6. Screening and Characterization of Ten Highly Variable Genes
3.7. Annotation of Six Cell Types from Twelve Cell Clusters
3.8. Differential Expression of the Two Hub Genes in the Differentiation Stage
3.9. Expression Levels of SLC3A2 and PDLIM1 in Chondrocytes under Inflammatory Conditions
3.10. Impact of SLC3A2 Knockdown on Chondrocytes
3.11. Consequences of PDLIM1 Knockdown in Chondrocytes under Inflammatory Conditions
4. Discussion
4.1. Implication of Hub Genes in the Biological Processes of OA
4.2. Involvement of SLC3A2 and PDLIM1 in the Pathogenesis of OA as Hub Genes
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Cao, S.; Wei, Y.; Yue, Y.; Wang, D.; Xiong, A.; Yang, J.; Zeng, H. Bioinformatics Identification and Experimental Verification of Disulfidptosis-Related Genes in the Progression of Osteoarthritis. Biomedicines 2024, 12, 1840. https://doi.org/10.3390/biomedicines12081840
Cao S, Wei Y, Yue Y, Wang D, Xiong A, Yang J, Zeng H. Bioinformatics Identification and Experimental Verification of Disulfidptosis-Related Genes in the Progression of Osteoarthritis. Biomedicines. 2024; 12(8):1840. https://doi.org/10.3390/biomedicines12081840
Chicago/Turabian StyleCao, Siyang, Yihao Wei, Yaohang Yue, Deli Wang, Ao Xiong, Jun Yang, and Hui Zeng. 2024. "Bioinformatics Identification and Experimental Verification of Disulfidptosis-Related Genes in the Progression of Osteoarthritis" Biomedicines 12, no. 8: 1840. https://doi.org/10.3390/biomedicines12081840