Comment[ArrayExpressAccession]	E-GEOD-48078
MAGE-TAB Version	1.1					
Public Release Date	2013-06-19
Investigation Title	Gene expression changes caused by YAP overexpression and Nf2 deletion in the developing mouse brain					
Comment[Submitted Name]	Gene expression changes caused by YAP overexpression and Nf2 deletion in the developing mouse brain
Experiment Description	The transcriptional coactivator YAP is the key downstream effector of the Hippo pathway. YAP overexpression in the developing mouse brain results in excessive expansion of the neural progenitor pool and severe perturbation of brain development. Nf2/Merlin is a tumor suppressor whose mutations are found in many human cancers. Loss of Merlin during brain development causes overexpansion of the neural progenitor pool. We used microarrays to identify the gene expression changes caused by YAP overexpression and Nf2 deletion. We used a double-transgenic system to overexpress YAP in the developing mouse brain by crossing mice carrying a doxycycline-dependent allele of YAP1-S127A (TetO-YAP1) with those expressing the reverse tetracycline-dependent transactivator rtTA under the control of the neural progenitor-specific Nestin promoter (Nes-rtTA) and feeding the dam with doxycycline-containing food (200 mg/kg) from E7.5. We conditionally deleted Nf2 using the telencephalon-specific Emx1-Cre.					
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	Neale	Cao	Neale			
Person First Name	Geoffrey	Xinwei	Geoffrey			
Person Email	geoffrey.neale@stjude.org					
Person Affiliation	St Jude Childrens Research Hospital					
Person Address	St Jude Childrens Research Hospital, 332 N Lauderdale St, Memphis, TN, USA					
Person Roles	submitter					
Protocol Name	P-GSE48078-1	P-GSE48078-4	P-GSE48078-5	P-GSE48078-2	P-GSE48078-3	P-GSE48078-6
Protocol Description	Signals from scanned arrays were summarized using the RMA method. Data from E11.5 and E13.5 mice were summarized as two separate groups. ID_REF =  VALUE = Log2 RMA signal	Biotinylated cRNA were prepared according to the standard Affymetrix 3' IVT Express protocol starting with 100 ng of total RNA (GeneChip 3' IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).	Following fragmentation, 5 micrograms of biotinylated cRNA was hybridized for 16 hr at 45C on an array (Affymetrix HT MG-430 PM Array Plate). GeneChips were washed and stained in the Affymetrix GeneTitan system.	Tissues were dissected in cold PBS, frozen in ethanol/dry ice slurry, and stored at -80 degree.	Trizol extraction of total RNA was performed according to the manufacturer's instructions.	GeneChips were scanned using the Affymetrix GeneTitan system.
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	GENOTYPE	AGE	ORGANISM PART			
Experimental Factor Type	genotype	age	organism part			
Comment[SecondaryAccession]	GSE48078					
Comment[GEOReleaseDate]	2013-06-19					
Comment[ArrayExpressSubmissionDate]	2013-06-18					
Comment[GEOLastUpdateDate]	2013-06-20					
Comment[AEExperimentType]	transcription profiling by array					
SDRF File	E-GEOD-48078.sdrf.txt