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Series GSE6584 Query DataSets for GSE6584
Status Public on Jul 30, 2007
Title HMEC nine-condition expression profiling
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Exposure to air particulate matter is associated with increased cardiovascular morbidity and mortality. One of the possible mechanisms is by promotion of atherosclerosis mediated by synergy of particulate matter chemicals and oxidized phospholipids on vascular endothelial cells. We treated human microvascular endothelial cells (HMEC) in triplicate wells with diesel exhaust particles (DEP) extract at a concentration of 5 and 25 mcg/ml, oxidized 1-palmitoyl-2-arachidonyl-sn-glycero-3-phosphorylcholine (ox-PAPC) at concentrations of 10, 20 and 40 mcg/ml or combination of DEP at 5 mcg/ml plus ox-PAPC at 10, 20 and 40 mcg/ml. The 3600 most variably expressed genes were employed to construct a weighted gene co-expression network to assess the degree of connectivity. Module enrichment analysis showed that three modules (Brown, Green and Yellow) were highly significant (p< 0.0001) in enriched genes regulated by the treatments. These three modules exhibited patterns of synergistic/additive interaction and were enriched in pathway genes relevant to vascular inflammation. The in-vivo relevance of this gene clustering analysis was established by demonstrating that liver gene expression of hypercholesterolemic mice exposed to ultrafine particles exhibited significant upregulation of similar gene pathways, as predicted by the in-vitro synergy.
Keywords: Expression profiling comparison, effect of DEP vs. ox-PAPC vs. DEP plus ox-PAPC
 
Overall design This experiment compares gene expression profiles of HMEC exposed to DEP, ox-PAPC or DEP plus ox-PAPC by Illumina HumanRef-8 v1 Expression Beadarrays. This design allowed to establish the genome wide synergistic effects of co-regulation induced by DEP and ox-PAPC.
Web link http://www.mednet.ucla.edu
 
Contributor(s) Gong K, Zhao W, Li N, Barajas B, Kleinman M, Sioutas C, Horvath S, Lusis AJ, Nel A, Araujo JA
Citation(s) 17655762
Submission date Dec 20, 2006
Last update date Mar 16, 2012
Contact name Leslie Ingram-drake
E-mail(s) [email protected]
Phone 310-794-9036
Fax 310-794-7345
URL http://www.mednet.ucla.edu
Organization name UCLA
Department Medicine/MIMG/Human Genetics
Street address 47-123 CHS
City Los Angeles
State/province CA
ZIP/Postal code 90095-1359
Country USA
 
Platforms (1)
GPL2700 Sentrix HumanRef-8 Expression BeadChip
Samples (27)
GSM152146 HMEC control 1432059024_C
GSM152147 HMEC control 1432059029_G
GSM152148 HMEC control 1432059029_H
Relations
BioProject PRJNA98915

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
GSE6584_RAW.tar 9.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table
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