Background: Osteoarthritis (OA) is a worldwide musculoskeletal disorder. However, disease-modifying therapies for OA are not available. Here, we aimed to characterize the molecular signatures of OA and to identify novel therapeutic targets and strategies to improve the treatment of OA.Methods: We collected genome-wide transcriptome data performed on 161 OA and 88 normal human cartilage or synovium tissues from 9 independent datasets. Differential gene expression analysis and functional enrichment were performed to identify genes and pathways that were dysregulated in OA. The computational drug repurposing method was used to uncover drugs that could be repurposed to treat OA.Results: We identified several pathways associated with the development of OA, such as extracellular matrix adhesion, inflammation, carbohydrate metabolism, and collagen organization. By protein-protein interaction (PPI) network analysis, we prioritized several hub genes, such as JUN, IL-6, VAMP8, and SOCS3. Moreover, we repurposed several FDA-approved drugs, such as cardiac glycosides, that could be used in the treatment of OA. Conclusions: We proposed that the hub genes we identified will play a role in cartilage homeostasis and could be important diagnostic and therapeutic targets. Drugs such as protein kinase inhibitors and cardiac glycosides could improve the treatment of OA.