Comment[ArrayExpressAccession]	E-GEOD-34646
MAGE-TAB Version	1.1							
Public Release Date	2013-03-27
Investigation Title	MiRNA expression profile in murine un-diseased arterial tissue on 3 month high fat diet vs 10 month high fat diet							
Comment[Submitted Name]	MiRNA expression profile in murine un-diseased arterial tissue on 3 month high fat diet vs 10 month high fat diet
Experiment Description	Aberrantly expressed miRNAs contribute to developmental abnormalities and diseases such as cancer, diabetes, and cardiovascular disorders, by hybridizing to specific mRNA targets and repressing their translation into proteins. Although miRNA expression signature is characterized in the process of neointimal thickening during proliferative vascular diseases such as atherosclerosis, so far global miRNA expression profiling in the different stages of atherosclerosis is completely unknown. We explored stage-specific microRNA signatures in the progress of atherosclerosis in hyperlipidemia mouse model, which may help to identify the critical miRNAs contributing atherosclerotic development and stabilization. Female apoe-/- mice (6-8 weeks, Jackson Laboratory) were fed a high fat diet (HFD, 21% crude fat, 0.15% cholesterol and 19.5% casein, Altromin, Germany) for 3 or 10 months (N=3-4). Serial sections (20 µm thick) of aortic roots and carotid arteries from these mice were mounted on membrane mounted metal frame slides (MMI), deparaffinized under RNase-free conditions, and completely dried. Laser capture microdissection (LCM) was performed with a laser microdissection system (MMI cellcut plus, Molecular Machines and Industries, Switzerland) assembled onto an inverted microscope (Olympus IX71). Plaque tissue or morphologically normal vessel wall of at least 40 sections per mouse were collected. RNA was isolated using RecoverAll total nucleic acid isolation kit (Applied Biosystems) according to the manufacturer’s instructions.							
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	Schober	Schober	Jahantigh	Wei				
Person First Name	Andreas	Andreas	Malihe	Yuanyuan				
Person Mid Initials			N					
Person Email	aschober@med.lmu.de							
Person Affiliation	Ludwig-Maximilians-University							
Person Address	Institute for Cardiovascular Prevention, Ludwig-Maximilians-University, Pettenkoferstr. 9, Munich, Bavaria, Germany							
Person Roles	submitter							
Protocol Name	P-GSE34646-1	P-GSE34646-5	P-GSE34646-6	P-GSE34646-2	P-GSE34646-8	P-GSE34646-3	P-GSE34646-4	P-GSE34646-7
Protocol Description	Taqman low density arrays were run on the 7900 HT Sequence Detection system.  The ABI TaqMan SDS v2.3 software was utilized to obtain raw CT values. To review results, the raw CT data (SDS file format) were exported from the Plate Centric View into the ABI TaqMan RQ manager software.  Automatic baseline and manual CTs were calculated with the RQ Manager Software for all samples. Statistical analysis: The global data set of miRs from card A and B was used for analysis. Data were calculated using Real Time StatMiner Tools [Integromics. http://www.integromics.com/StatMiner.php].  Input data for analysis consisted of all samples. CT values were normalized to the most stable endogenous controls (snoRNA202, snoRNA135, snoRNA429 and MammU6 for Card A and B) according to the Genorm algorithm. ID_REF =  VALUE = [delta] CT = CT,sample - CT,endogenous control.	N/A	N/A	mice were fed on 3 month high fat diet	mice were fed on 10 month high fat diet	N/A	RecoverAll total nucleic acid isolation kit (Applied Biosystems) see http://www3.appliedbiosystems.com/cms/groups/mcb_support/documents/generaldocuments/cms_056616.pdf	N/A
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Publication Title	The microRNA-342-5p fosters inflammatory macrophage activation through an Akt1- and microRNA-155-dependent pathway during atherosclerosis.							
Publication Author List	Wei Y, Nazari-Jahantigh M, Chan L, Zhu M, Heyll K, Corbal�n-Campos J, Hartmann P, Thiemann A, Weber C, Schober A							
PubMed ID	23513069							
Publication DOI	10.1161/CIRCULATIONAHA.112.000736							
Comment[SecondaryAccession]	GSE34646							
Comment[GEOReleaseDate]	2013-03-27							
Comment[ArrayExpressSubmissionDate]	2011-12-22							
Comment[GEOLastUpdateDate]	2013-03-27							
Comment[AEExperimentType]	transcription profiling by RT-PCR							
Comment[AdditionalFile:Data1]	GSE34646_3m_vs_10m_healthy_ct_raw_data.xlsx							
SDRF File	E-GEOD-34646.sdrf.txt