liu.seSearch for publications in DiVA
Change search
ReferencesLink to record
Permanent link

Direct link
Whole-genome expression profiling of human plaques to identify genes relevant for atherosclerosis: the Stockholm Atherosclerosis Gene Expression Study, Stockholm Söder Hospital, Sweden (SöS-STAGE)
Linköping University, Department of Physics, Chemistry and Biology, Computational Biology. Linköping University, The Institute of Technology.
Show others and affiliations
(English)Manuscript (preprint) (Other academic)
Abstract [en]


To reveal relevant genes for atherosclerosis by whole-genome expression analyses of plaques from patients undergoing carotid endorectomy.

Methods and Results

Whole-genome expression measurements (WGEM) using Affymetrix HG-U133_Plus_2 chip of carotid plaques in patients undergoing carotid endorectomy at Stockholm Söder Hospital, Sweden. Patients were screened for conventional risk factors at a three-month follow-up visit and atherosclerosis burden in the common carotid artery (CCA) was measured by intima-media thickness (IMT). An unsupervised coupled two-way clustering approach identified genderspecific genes and 55 genes associated to degree of IMT in these patients.


Coupled two-way clustering of carotid lesion expression profiles from a well-characterized clinical cohort is useful for identification of novel genes that may be relevant for atheroscleroris.

National Category
Natural Sciences
URN: urn:nbn:se:liu:diva-102665OAI: diva2:680735
Available from: 2013-12-18 Created: 2013-12-18 Last updated: 2013-12-18
In thesis
1. Gene Expression Profiling of Human Atherosclerosis
Open this publication in new window or tab >>Gene Expression Profiling of Human Atherosclerosis
2006 (English)Licentiate thesis, comprehensive summary (Other academic)
Abstract [en]

Atherosclerosis is the main underlying cause of coronary artery disease (CAD) and stroke. These two diseases are leading causes of death in the developed world. The socio-economical cost for treatments and absence of work is enormous. Recent numbers from the US show no tendency of decline in the spread of atherosclerosis.

Common risk factors for premature atherosclerosis are obesity, diabetes, smoking, physical inactivity and high blood pressure. Medications have been developed for treatment of risk factors and a breakthrough was the release of statins, an effective lipid-lowering drug. Nevertheless, atherosclerosis is multi-factorial and all the different players in the pathological process are not yet identified. New large-scale studies, such as gene expression profiling, are needed to understand the interplay between risk factors and pathways in atherosclerosis and with that reveal new therapeutic targets.

In this thesis two studies are presented where gene expression profiling in well-characterized patients suffering from severe atherosclerosis have been performed. In study number one, five types of tissues (atherosclerotic aortic root, unatherosclerotic mammary artery, mediastinal fat, skeletal muscle and liver) were collected from a total of 66 patients undergoing coronary by-pass surgery. Subjects were also screened for cardiovascular risk factors. RNA was isolated from the biopsies and gene expression analysis using Affymetrix GeneChip system was performed. The main result showed that mediastinal fat appears to be central in CAD.

In study number two, gene expression analysis of plaques from patients undergoing carotid endorectomy was performed. Again, all patients were screened for conventional risk factors and RNA was isolated and expression profiles were obtained using Affymetrix technology. Cluster analyses identified genes associated to intima-media thickness in these patients.

Taken together, expression analyses of clinical whole-genome expression datasets can be used to identify novel pathways and individual genes with possible importance for atherosclerosis development.

Place, publisher, year, edition, pages
Linköping: Linköpings universitet, 2006. 29 p.
Linköping Studies in Science and Technology. Thesis, ISSN 0280-7971 ; 1279
National Category
Natural Sciences
urn:nbn:se:liu:diva-36166 (URN)30277 (Local ID)91-85643-62-9 (ISBN)30277 (Archive number)30277 (OAI)
Available from: 2009-10-10 Created: 2009-10-10 Last updated: 2013-12-18

Open Access in DiVA

No full text

Search in DiVA

By author/editor
Hägg, Sara
By organisation
Computational BiologyThe Institute of Technology
Natural Sciences

Search outside of DiVA

GoogleGoogle Scholar
The number of downloads is the sum of all downloads of full texts. It may include eg previous versions that are now no longer available

Total: 46 hits
ReferencesLink to record
Permanent link

Direct link