Using bioinformatics to analyze the effect of age on fracture healing
10.11958/j.issn.0253-9896.2015.06.010
- VernacularTitle:年龄对骨折愈合影响的生物信息学分析
- Author:
Shunyi WANG
;
Hui LI
;
Changqing HU
;
Dongliang REN
;
Weisong MA
;
Weifeng LI
;
Tao YU
- Publication Type:Journal Article
- Keywords:
computational biology;
fracture;
age factors;
R programming language;
pathway;
PPI network
- From:
Tianjin Medical Journal
2015;(6):616-619,705
- CountryChina
- Language:Chinese
-
Abstract:
Objective To explore the effect of age on the fracture healing through bioinformatical analysis of gene ex?pression data in GEO, and to screen critical molecular targets and pathways involved in this process. Methods Through R programming language, we identified different expressed genes between 26/52 week old rats and 6 week old rats in every time points of the experiment (No fracture;3 days, 1 week, 2 weeks, 4 weeks and 6 weeks after fracture). By comparison of these different expressed genes, those genes that may contribute to fracture healing were identified. Function annotation was conducted based on DAVID database and PPI network that was constructed via STRING database. Results Compared with 6 week old rat, 52 week old rat show more different genes at 2, 4 and 6 weeks after fracture as well as more than intact rats. At the time point of 6 weeks after fracture, 26 week old rat present 4 different genes while 52 week old rat present 99 differ?ent genes compared with 6 week old rat. We totally found 99 genes that might play important roles in the process of fracture healing. These genes involved in biological process related to bone healing, immune, inflammatory and etc. Also, two screened gene enriched KEGG pathways were identified: ECM-receptor interaction and Arachidonic acid metabolism. Through the analysis of PPI network, Pcna, Fn1, Casp3 and etc, who present high density connectivity in PPI network, were screened out. Conclusion Pcna, Casp3 and Fn1 and etc might play important roles in fracture healing through affecting ECM-receptor interaction and Arachidonic acid metabolism.
