Screening for differential genes of the esophageal squamous cell carcinoma after DDX46 knockdown and bioinformatics analysis of their interaction
- VernacularTitle:敲减 DDX46 后食管鳞癌细胞差异表达基因筛选及相互作用的生物信息学分析
- Author:
LI Bin
1
;
LI Zheng
1
;
YIN Ci
1
;
LIN Junping
1
;
YANG Jianbao
1
;
ZHU Duojie
1
;
FENG Haiming
1
;
JING Tao
1
Author Information
1. Department of Thoracic Surgery, Lanzhou University Second Hospital, Lanzhou University Second Clinical Medical College, Lanzhou, 730030, P.R.China
- Publication Type:Journal Article
- Keywords:
DDX46;
esophageal squamous cell carcinoma;
gene chip;
differential genes;
bioinformatics
- From:
Chinese Journal of Clinical Thoracic and Cardiovascular Surgery
2020;27(01):61-67
- CountryChina
- Language:Chinese
-
Abstract:
Objective To explore the mechanism of DDX46 regulation of esophageal squamous cell carcinoma. Methods Picture signals of fluorescence in gene array were scanned and differential expression of gene in two groups (a DDX46-shRNA-LV group and a control-LV group) were compared by GCOSvL.4 software. These differential expressed genes were analyzed by bioinformatics methods finally, and validated by quantitative real time polymerase chain reaction (qRT-PCR) analysis. Results According to the screening criteria of fold change ≥2 and P<0.05, 1 006 genes were differentially expressed after DDX46 knockdown, including 362 up-regulated and 644 down-regulated genes. Bioinformatics analysis and gene co-expression network building identified that these differentially expressed genes were mainly involved in cell cycle, proliferation, apoptosis, adhesion, energy metabolism, immune response, etc. Phosphatidylinositol 3-kinase (PI3K) was the key molecule in the network. The results of RT-qPCR were completely consistent with the results of gene microarra. Conclusion Bioinformatics can effectively exploit the microarray data of esophageal squamous cell carcinoma after DDX46 knockdown, which provides a valuable clue for further exploration of DDX46 tumorigenesis mechanism and helps to find potential drug therapy.
