Differential gene expression profiling for identification of potential pathogenic genes and pathways in carotid unstable plaques.
- Author:
Wenqing NAI
1
;
Hao LIU
;
Yuanyuan WANG
;
Lanlan SHAN
;
You FU
;
Hongyuan WU
;
Yan DING
;
Shunzhi CHEN
;
Zhengjun LIU
;
Jie CHEN
;
Meng DAI
Author Information
- Publication Type:Journal Article
- MeSH: Adaptor Proteins, Signal Transducing; genetics; Disease Progression; Down-Regulation; Gene Expression Profiling; Humans; Membrane Proteins; genetics; Oligonucleotide Array Sequence Analysis; Plaque, Atherosclerotic; genetics; Protein Interaction Maps; Real-Time Polymerase Chain Reaction; Receptors, CXCR4; genetics; Transcriptome; Up-Regulation; Vinculin; genetics
- From: Journal of Southern Medical University 2015;35(5):738-742
- CountryChina
- Language:Chinese
-
Abstract:
OBJECTIVETo explore the molecular mechanism in the formation of unstable plaques.
METHODSThe cDNA microarray E-MTAB-2055 was downloaded from ArrayExpress database to screen the differentially expressed genes in 24 ruptured plaques against 24 stable plaques. Functional enrichment analysis was conducted to define the biological processes and pathways involved in disease progression. The protein-protein interaction network was constructed to identify the risk modules with close interactions. Five pairs of carotid specimens were used to validate 3 differentially expressed genes of the risk modules by real-time PCR.
RESULTSA total of 439 genes showed differential expression in our analysis, including 232 up-regulated and 207 down-regulated genes according to the data filter criteria. Immune-related biological processes and pathways were greatly enriched. The protein-protein interaction network and module analysis suggested that TYROBP, VCL and CXCR4 might play critical roles in the development of unstable plaques, and differential expressions of CXCR4 and TYROBP in carotid plaques were confirmed by real-time PCR.
CONCLUSIONOur study shows the differential gene expression profile, potential biological processes and signaling pathways involved in the process of plaque rupture. TYROBP may be a new candidate disease gene in the pathogenesis of unstable plaques.
