Transcriptomics

Dataset Information

34

Gene expression profiling of human atherosclerotic plaque: Laser capture microscopy of smooth muscle cells and macrophages


ABSTRACT: In order to identify potential new biomarkers of atherosclerotic plaque composition we performed a large scale analysis of gene expression patterns in human atherosclerotic lesions. Whole genome expression analysis of 101 peripheral plaques identified a robust gene signature (1514 genes) dominated by inflammatory processes, and cholesterol metabolism and storage genes. Specific pathways enriched in this signature included activation of the Toll-like receptor signaling pathway, T-cell activation, cholesterol efflux, oxidative stress response, inflammatory cytokine production, vasoconstriction and lysosomal activity. Analysis of gene expression in plaque micro-dissected material revealed that the signature is strongly up-regulated in macrophage-rich regions and down-regulated in regions with high smooth muscle cell content. A smaller qPCR biomarker panel and inflammatory composite score (ICS) were developed to facilitate clinical translation of discoveries from gene expression profiling. We found that ICS correlates with histological features related to plaque vulnerability. In addition, ICS is able to separate groups of plaques obtained from symptomatic and asymptomatic patients undergoing carotid endarerectomy. In summary, we identified a robust mRNA biomarker panel associated with histo-pathological as well as clinical hallmarks of vulnerable atherosclerotic plaque. This panel may be used as a diagnostic and prognostic tool in clinical setting to evaluate novel anti-atherosclerotic therapies. Overall design: Laser captured smooth muscle cells and macrophages from carotid plaque sections (n=3) profiled in the Merck/Agilent 44k v1.1. The reference sample was a pool RNA from whole sections.

INSTRUMENT(S): Rosetta/Merck Human 44k 1.1 microarray

ORGANISM(S): Homo sapiens  

SUBMITTER: Oscar Puig  

PROVIDER: GSE23303 | GEO | 2011-10-01

SECONDARY ACCESSION(S): PRJNA133291

REPOSITORIES: GEO

Similar Datasets

2011-09-30 | E-GEOD-23303 | ArrayExpress
2011-10-01 | GSE23304 | GEO
2011-10-01 | GSE24495 | GEO
2011-09-30 | E-GEOD-23304 | ArrayExpress
2011-09-30 | E-GEOD-24495 | ArrayExpress
2011-10-01 | GSE24702 | GEO
2011-09-30 | E-GEOD-24702 | ArrayExpress
2011-09-30 | E-GEOD-23314 | ArrayExpress
| GSE32114 | GEO
2016-05-24 | PXD003930 | Pride