Ferroptosis-related genes in osteoporosis: a bioinformatics analysis and in vitro study.
10.3724/zdxbyxb-2024-0089
- Author:
Yushuang XIA
1
;
Bo WANG
2
;
Pengfei PAN
3
;
Xiangshun REN
2
;
Lixi GAO
2
;
Jian XIONG
2
;
Yan MA
4
Author Information
1. The First Clinical College of Hubei University of Chinese Medicine, Wuhan 430061, China. 2559114291@qq.com.
2. Rehabilitation Medicine Center, Wuhan First Municipal Hospital Affiliated to Hubei University of Chinese Medicine, Wuhan 430022, China.
3. The First Clinical College of Hubei University of Chinese Medicine, Wuhan 430061, China.
4. Rehabilitation Medicine Center, Wuhan First Municipal Hospital Affiliated to Hubei University of Chinese Medicine, Wuhan 430022, China. 1203135093@qq.com.
- Publication Type:Journal Article
- Keywords:
Bioinformatics;
Biomarker;
Ferroptosis;
In vitro test;
Osteoporosis
- MeSH:
Osteoporosis/genetics*;
Humans;
Computational Biology;
Ferroptosis/genetics*;
Protein Interaction Maps/genetics*;
Gene Ontology;
Mesenchymal Stem Cells/metabolism*;
Gene Expression Profiling;
Databases, Genetic
- From:
Journal of Zhejiang University. Medical sciences
2024;53(6):680-690
- CountryChina
- Language:Chinese
-
Abstract:
OBJECTIVES:To explore ferroptosis-related genes in osteoporosis through bioinformatic analysis and in vitro study.
METHODS:Osteoporosis-related genes were identified from dataset GSE35958 in the Gene Expression Omnibus database; and the ferroptosis-related genes were identified from the FerrDb database. These were intersected with the differentially expressed genes in GSE35958 to obtain ferroptosis-related genes in osteoporosis. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis were performed for the differentially expressed genes. And Spearman correlation and protein-protein interaction network analysis were performed. Then, the hub genes of ferroptosis in osteoporosis were screened by Degree, MNC, EPC, MCC and DMNC in Cytoscape software CytoHubba plugin; and analyzed with receiver operating characteristic (ROC) curves. The bone marrow mesenchymal stem cells from osteoporosis patients (osteoporosis group) and non-osteoporosis patients (control group) were subjected to quantitative reverse transcription polymerase chain reaction to detect the messenger RNA expression of ferroptosis hub genes in both groups.
RESULTS:A total of 32 differentially expressed genes related to ferroptosis in osteoporosis were identified, including 26 up-regulated genes and 6 down-regulated genes. GO enrichment analysis showed that the identified genes were mainly involved in intercellular adhesion, lipid metabolism and cytokine response. KEGG enrichment analysis showed that the genes were mainly involved in signaling pathways of adhesive plaques, MAPK, PI3K-Akt, and Wnt. Spearman correlation analysis showed correlation among differentially expressed genes. Six hub genes for ferroptosis in osteoporosis were obtained, namely MAPK3, CDKN1A, MAP1LC3A, TNF, RELA, and TGF-β1. ROC curve analysis showed that these hub genes had good diagnostic performance in osteoporosis and may become potential biomarkers of osteoporosis. In vitro experiments confirmed significant differences in these hub genes between the control group and the osteoporosis group (all P<0.05).
CONCLUSIONS:This study has identified six ferroptosis-related hub genes in osteoporosis, which may be used as novel biomarkers for the early diagnosis and treatment of osteoporosis.
