Open Access Highly Accessed Research

Atherosclerosis and liver inflammation induced by increased dietary cholesterol intake: a combined transcriptomics and metabolomics analysis

Robert Kleemann12*, Lars Verschuren12, Marjan J van Erk3, Yuri Nikolsky4, Nicole HP Cnubben3, Elwin R Verheij3, Age K Smilde5, Henk FJ Hendriks3, Susanne Zadelaar1, Graham J Smith6, Valery Kaznacheev47, Tatiana Nikolskaya47, Anton Melnikov47, Eva Hurt-Camejo8, Jan van der Greef23, Ben van Ommen3 and Teake Kooistra1

Author Affiliations

1 Department of Vascular and Metabolic Diseases, TNO-Quality of Life, BioSciences, Gaubius Laboratory, Zernikedreef 9, 2333 CK Leiden, The Netherlands

2 Department of Vascular Surgery, Leiden University Medical Center, Albinusdreef 2, 2300 RC Leiden, The Netherlands

3 Department of Physiological Genomics, TNO-Quality of Life, BioSciences, Utrechtseweg 48, 3704 HE Zeist, The Netherlands

4 GeneGo Inc., Renaissance Drive, St Joseph, MI 49085, USA

5 Department of Analytical Research, TNO-Quality of Life, Quality and Safety, Utrechtseweg 48, 3704 HE Zeist, The Netherlands

6 AstraZeneca, CV&GI Research, Silk Road Business Park, Macclesfield, Cheshire SK10 2NA, UK

7 Vavilov Institute for General Genetics, Russian Academy of Science, Gubkin Street 3, 117809 Moscow, Russia

8 AstraZeneca CV&GI Research, 43183 Mölndal, Sweden

For all author emails, please log on.

Genome Biology 2007, 8:R200  doi:10.1186/gb-2007-8-9-r200

Published: 24 September 2007

Additional files

Additional data file 1:

Exponential positive correlation between atherosclerotic lesion area and total plasma cholesterol in female E3L mice.

Format: PPT Size: 58KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data

Additional data file 2:

Validation and confirmation of Affymetrix microarray gene expression data by RT-PCR analysis.

Format: PPT Size: 145KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data

Additional data file 3:

Genes (including GenBank identification number and the gene symbol) that are differentially expressed with increasing doses of dietary cholesterol.

Format: DOC Size: 329KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional data file 4:

Canonical pathway analysis for cholesterol metabolism and analysis of the gene expression data based on GO annotation with disease categories (MetaCore™ software, GeneGO).

Format: PPT Size: 387KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data

Additional data file 5:

Comprehensive network analysis (functional OMICs analysis) by merging gene expression datasets with the metabolite datasets using MetaCore™ network software.

Format: PPT Size: 153KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data

Additional data file 6:

Biological networks of differentially expressed genes in the HC group allowing the identification of transcriptional master regulators.

Format: PPT Size: 1.3MB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data

Additional data file 7:

Cholesterol-induced factors with reported extracellular function.

Format: DOC Size: 367KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional data file 8:

Quality control analysis steps for RNA samples prior to hybridization on Affymetrix microarrays usig Agilent Lab-on-a-chip technology.

Format: PPT Size: 649KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data