Screening of differentially expressed genes of middle cerebral artery occlusion with DNA microarray.

To screen differentially expressed genes of different days after cerebral artery occlusion and drug treatment, and identify related small drug molecules. The gene expression profile GSE35338 of cerebral artery occlusion was downloaded from Gene Expression Omnibus database, including a total of 14 samples. 5 samples are 1 day after cerebral artery occlusion (control), 3 samples are 7 days after cerebral artery occlusion and 3 samples are under lipopolysaccharide (LPS) treatment. Differentially expressed genes (DEGs) between different days after cerebral artery occlusion were screened (p < 0.05, FDR < 0.05, |logFC| > 1). The DEGs were then entered into the CMAP database and related small drug molecules were retrieved, followed by calculation of co-expression score of the genes and construction of co-expression-drug network. FuncAssociate software and DAVID were used to obtain the functional clusters of genes with p-value < 0.05 and FDR < 0.05. Compared with the control group, 825, 1445, 218 DEGs and 4, 3, 2 most-related small drug molecules were respectively identified from 3, 7 days after cerebral artery occlusion and LPS treated group. Co-expression network was constructed and functional clusters were found to be 161, 146, and 6 in each group. Our study provides some underlying biomarkers for cerebral artery occlusion under varied conditions and potential small drug molecules for treatment of cerebral artery occlusion.

Citation

Y-D Zhang, X-H Gu, R-Y Dai, Z Chen, J Zhou, X-Z He, H Wu, H-J Yang, Y-H Zhang. Screening of differentially expressed genes of middle cerebral artery occlusion with DNA microarray. European review for medical and pharmacological sciences. 2013 May;17(9):1205-10

Mesh Tags

Substances

PMID: 23690190

search → result