Differential mRNA expression profile and competitive endogenous RNA regulatory network in osteoarthritis
10.3969/j.issn.2095-4344.3072
- Author:
Li JIACHENG
1
Author Information
1. First Clinical School of Shandong University of Traditional Chinese Medicine
- Publication Type:Journal Article
- Keywords:
Arthritis;
Bioinformatics;
Bone;
Cartilage;
Data mining;
Gene;
Immune;
Regulatory network;
RNA
- From:
Chinese Journal of Tissue Engineering Research
2021;25(8):1212-1217
- CountryChina
- Language:Chinese
-
Abstract:
BACKGROUND: The possible causes of osteochondroarthritis have been identified as cartilage degeneration, autophagy, mechanical changes, cartilage hypertrophy, internal immunity, oxidative stress, and pain. OBJECTIVE: To explore the pathogenesis of osteoarthritis that is a degenerative disease of articular cartilage caused by a variety of factors. METHODS: GSE51588 and GSE19060, the chip data sets related to osteoarthritis in GEO database, were retrieved, and differential genes were analyzed with the help of R language. miRDB, miRTarbase and starBase databases were used to predict the targeted miRNAs of osteoarthritis related mRNAs respectively, and miRNA-mRNA regulatory network was constructed. GeneMANIA and FUNRICH were used to analyze the mRNAs mentioned in the regulatory network. lncRNA-miRNA-mRNA ceRNA regulatory network was constructed by retrieving LncRNADisease database and osteoarthiritis related IncRNA, using Starbase database to predict their miRNAs. RESULTS AND CONCLUSION: A total of 11 significantly differentially expressed mRNAs were screened by R language analysis. Through the cross-mapping of miRDB, miRTarbase and starBase and the predicted targeted miRNAs and the above 11 differentially expressed mRNAs, 290 miRNAs were identified to be involved in the construction of the miRNA-mRNA regulatory network related to osteoarthritis. Fifteen incRNAs related to the pathogenesis of osteoarthritis were retrieved in the LncRNADisease database, 270 miRNAs were predicted using Starbase database, and the lncRNA-miRNA-mRNA ceRNA regulatory network consisting of 5 IncRNAs, 106 miRNAs and 8 mRNAs was constructed. Seven major biological processes and two major signaling pathways were obtained through FUNRICH. Finding from our further analysis indicate that differentially expressed mRNA is mainly related to the biological processes of protein metabolism, cell communication, signal transduction, immune response, metabolism, energy pathway and cell growth. By participating in the pathogenesis of osteoarthritis, it provides ideas for the determination of therapeutic targets for osteoarthritis.
