Comment[ArrayExpressAccession]	E-GEOD-39813
Public Release Date	2012-08-01							
Investigation Title	Gene expression changes in testes from Abcg8 knockout mice compared to wild-type mice or to Abcg8 knockout mice where plant sterol entry was blocked by ezetimibe							
Comment[Submitted Name]	Gene expression changes in testes from Abcg8 knockout mice compared to wild-type mice or to Abcg8 knockout mice where plant sterol entry was blocked by ezetimibe
Experiment Description	Abcg8 knockout mice, fed chow, are infertile. These mice also are susceptible to absorption and retention of xenosterols contained in the diet. Ezetimibe, a blocker of dieary sterol entry, can reverse the fertility in Abcg8 knockout mice. In order to identify if the xenosterols resulted in disruption of a specific set of genes in the testes, we compared wild-type testes, Abcg8 knockout testes, or testes from Abcg8 knockout mice fed chow supplemented with 0.005% ezetimibe. To identify genes of interest, we reasoned that any causative gene expression changes seen in Abcg8 knockout mice fed chow, resulting in xenosterol exposure and accumulation, leading to infertilty, would be reveresed back to a pattern seen in the wild-type mice, when Abcg8 knockout mice are raised on chow containing ezetimibe (which prevents xenosterol absorption in the intestine). The target of this drug, Npc1l1, is not expressed in the testes. Testes from wild-type mice, Abcg8 knockout mice, and Abcg8 knockout mice fed chow supplemented with ezetimibe were analyzed.							
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Term Source File	http://www.ebi.ac.uk/efo/efo.owl							
Person Last Name	Falduto	Patel	Solca					
Person First Name	Michael	Shailendra	Curzio					
Person Mid Initials		B						
Person Email	mfalduto@genusbiosystems.com							
Person Affiliation	GenUs BioSystems, Inc.							
Person Phone	847-291-9602							
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Person Address	GenUs BioSystems, Inc., 1808 Janke, Unit M, Northbrook, IL, USA							
Person Roles	submitter							
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Protocol Name	P-GSE39813-1	P-GSE39813-5	P-GSE39813-2	P-GSE39813-7	P-GSE39813-6	P-GSE39813-8	P-GSE39813-3	P-GSE39813-4
Protocol Description	ID_REF = <br>VALUE = Normalized intensity value	cRNA was fragmented to uniform size and verified on the Bioanalyzer. Applied Biosystems Mouse Genome Survey microarrays were hybridized with the cRNA target and treated for chemiluminescence detection.	Mice were fed rodent chow. All mice were between 10-12 weeks of age.	Data was analyzed with GeneSpring GX software. Intensity values were normalized to the median intensity of each array.	Arrays were imaged and processed on the AB1700 Microarray Analyzer.	Mice were fed chow supplemented with 0.005% ezetimibe.	Total RNA was extracted and purified using RiboPure RNA Isolation (Ambion). Total RNA samples were quantitated by UV spectrophotometry. Quality of total RNA was assessed using an Agilent Bioanalyzer.	First and second strand cDNA was prepared from the total RNA samples. Digoxigenin-labeled cRNA target was prepared from the DNA template and verified on the Bioanalyzer.
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Protocol Type	bioassay_data_transformation	hybridization	grow	feature_extraction	image_aquisition	specified_biomaterial_action	nucleic_acid_extraction	labeling
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Experimental Factor Name	GENOTYPE							
Experimental Factor Type	genotype							
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Comment[SecondaryAccession]	GSE39813							
Comment[AdditionalFile:Data1]	GSE39813_raw_data.txt							
Comment[GEOLastUpdateDate]	2012-08-01
Comment[AEExperimentType]	transcription profiling by array							
Comment[GEOReleaseDate]	2012-07-31
Comment[ArrayExpressSubmissionDate]	2012-07-31
SDRF File	E-GEOD-39813.sdrf.txt