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Series GSE12288 Query DataSets for GSE12288
Status Public on Oct 31, 2008
Title Gene expression patterns in peripheral blood correlate with the extent of coronary artery disease
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Gene expression profile in circulating leukocytes identifies patients with coronary artery disease

Peter Sinnaeve, Mark Donahue, Peter Grass, Jacky Vonderscher, David Seo, Pascal Goldschmidt, Christopher Granger

Department of Medicine, Duke University, Durham, NC, USA, Novartis Institute for Biomedical Research, Cambridge, Boston, MA, USA

Introduction

Systemic and local inflammation plays a prominent pathogenetic role in atherosclerotic coronary artery disease (CAD), but the relationship of phenotypic changes in circulating leukocytes and extent of CAD remains unclear. We have investigated whether gene expression patterns in circulating leukocytes are associated with presence and extent of CAD.

Methods

Patients undergoing coronary angiography were selected according to their Duke CAD index (CADi), a validated angiographical measure of the extent of coronary atherosclerosis that correlates with outcome. RNA was extracted from 110 patients with CAD (CADi>23) and from 112 partially matched controls without CAD (CADi=0). Gene expression was assessed using Affymetrix U133A chips. Genes correlating with CAD were identified using Spearman’s rank correlation, and predictive gene expression patterns were identified using a partial least squares (PLS) regression analysis.

Results

160 individual genes were found to significantly correlate with CADi (rho>0.2, P<0.0027), although changes in individual gene expression were relatively small (1.2 to 1.5 fold). Using these 160 genes, the PLS multivariate regression resulted in a highly predictive model (r2=0.764, P<0.001). Cross-validation showed that most of the predictive model was carried by only 8 genes (r2=0.752) (table 1).

Conclusion

Simultaneous expression pattern of 8 genes appears to be highly predictive for CAD. Peripheral leukocyte gene expression pattern could be a novel non-invasive biomarker for CAD and lead to new pathophysiologic insights.
 
Overall design parallel group design
 
Contributor(s) Grass P, Sinnaeve P
Citation(s) 19750006
Submission date Jul 30, 2008
Last update date Aug 10, 2018
Contact name Peter Grass
E-mail(s) peter.grass@novartis.com
Phone +41 61 6961558
Organization name Novartis
Department DMP
Lab QB
Street address Klybeck Strasse
City Basel
ZIP/Postal code 4001
Country Switzerland
 
Platforms (1)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
Samples (222)
GSM308566 Patient with CAD; patient group: control; CADi: 0 (d3913)
GSM308567 Patient with CAD; patient group: control; CADi: 0 (d3914)
GSM308568 Patient with CAD; patient group: control; CADi: 0 (d3747)
Relations
BioProject PRJNA113575

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE12288_RAW.tar 722.8 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table
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