Comment[ArrayExpressAccession]	E-GEOD-61046
MAGE-TAB Version	1.1														
Public Release Date	2014-09-03
Investigation Title	Expression data from mouse carotid arteries in response to wire-injury														
Comment[Submitted Name]	Expression data from mouse carotid arteries in response to wire-injury
Experiment Description	IRF9 is ubiquitously expressed and mediates the effects of IFNs, previous study showed that IRF9 played an important role in immunity and cell fate decision. Our recent study revealed that IRF9 involved in cardiac hypertrophy, hepatic steatosis and insulin resistance. However, the function of IRF9 in VSMC and neointima formation was largely unknown. We found that IRF9 expression was significantly increased in the VSMCs of mouse carotid artery. More importantly, we generated SMC-specific IRF9 overexpression transgenic mice (IRF9 TG) and found that IRF9 TG significantly increased VSMC proliferation, migration and neointima formation compared with NTG mice in response to injury. To evaluate the underlying mechanism by which IRF9 promotes VSMC proliferation and migration after vascular injury, IRF9 TG and NTG mice were subjected to wire-injury and the carotid arteries were collected at 14 days post-injury. We combined 3-5 vessels for one sample, and 3 samples for each phenotype. Subsequently, a total of 400ng RNA was used following Affymetrix instruction and 10 ug of cRNA were hybridized for 16 hr at 45°. GeneChips were scanned using the Scanner 7G and the data was analyzed with Expression Console using Affymetrix default analysis settings and global scaling as normalization method. RMA analysis was employed to evaluate the gene expression. We used microarrays to detect the global gene expression in the carotid arteries of smooth muscle cell specific IRF9 transgenic mice(IRF9 TG) compared with non transgenic control mice (NTG) at 14 days post-injury and identified distinct classes of altered genes. non-transgenic controls mice (NTG) and smooth muscle specific IRF9 transgenic mice (IRF9 TG) were subjected to wire-injury and the carotid ateries were collected at 14 days post-injury. We combine 3-5 vessels in one tube and for a single Affymetrix microarray. Total RNA was extracted and a total of 400ng RNA was used following Affymetrix instruction. 3 biological samples for each genotype.														
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl													
Person Last Name	Li	Zhang	Zhu	Chen	Zhang	Zhang	Jiang	Gao	Tian	Wang	Zhang	Wang	Zhang	Zhang	Li
Person First Name	Hongliang	Shumin	Li-Hua Zhu	Hou-Zao	Ran	Peng	Ding-Sheng	Lu	Song	Lang	Yan	Pi-Xiao	Xiao-Fei	Xiao-Dong	Hongliang
Person Email	lihl@whu.edu.cn														
Person Affiliation	Renmin Hospital of Wuhan University														
Person Address	Department of Cardiology, Renmin Hospital of Wuhan University, JieFang Road 238, Wuhan, Wuhan, Hubei, China														
Person Roles	submitter														
Protocol Name	P-GSE61046-1	P-GSE61046-5	P-GSE61046-6	P-GSE61046-2	P-GSE61046-3	P-GSE61046-4	P-GSE61046-7								
Protocol Description	The data were analyzed with Expression Console using Affymetrix default analysis settings and global scaling as normalization method. RMA analysis was employed to evaluate the gene expression ID_REF =  VALUE = RMA signal	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 400ng total RNA	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃.	Mice were treated with wire-injury operation, and the arteries were collected at 14 days post-injury and were immediately put in RNAlatter reagent.	The mice were exposed to a 12-h light/dark cycle with controlled temperature and humidity. Food and water were provided ad libitum.	Trizol extraction of total RNA was performed according to the manufacturer's instructions.	GeneChips were scanned using the Scanner 7G.								
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol								
Experimental Factor Name	GENOTYPE														
Experimental Factor Type	genotype														
Comment[SecondaryAccession]	GSE61046														
Comment[GEOReleaseDate]	2014-09-03														
Comment[ArrayExpressSubmissionDate]	2014-09-03														
Comment[GEOLastUpdateDate]	2014-09-04														
Comment[AEExperimentType]	transcription profiling by array														
SDRF File	E-GEOD-61046.sdrf.txt