Comment[ArrayExpressAccession]	E-MTAB-1303
Investigation Title	The Id-RAP1 axis is essential for glioma maintenance and residency of glioma cells in the perivascular niche						
Comment[Submitted Name]	The Id-RAP1 axis is essential for glioma maintenance and residency of glioma cells in the perivascular niche
Experiment Description	The experiment was designed to achieve Cre recombinase mediated deletion of Id1, Id2 and Id3 in a temporally controlled fashion in tumor cells of Id1, Id2, Id3 floxed mice with the aim of comparing the gene expression profiles of Id expressing versus Id deleted tumors.						
Date of Experiment	2012-07-09						
Public Release Date	2013-04-30						
Comment[AEExperimentDisplayName]	Transcription profiling by array of Cre recombinase mediated deletion of Id1, Id2 and Id3 in a temporally controlled fashion in tumor cells of Id1, Id2, Id3 floxed mice						
Comment[AEExperimentType]	transcription profiling by array						
Experimental Design	genetic modification design	in_vivo_design					
Experimental Design Term Source REF	EFO						
Experimental Factor Name	GENOTYPE	TREATMENT					
Experimental Factor Type	genotype	treatment					
Experimental Factor Term Source REF	EFO						
Person Last Name	Zoppoli						
Person First Name	Pietro						
Person Email	zoppoli.pietro@gmail.com						
Person Affiliation	Columbia University						
Person Roles	submitter						
Quality Control Type	control spike calibration						
Quality Control Term Source REF	EFO						
Replicate Type	biological replicate						
Normalization Type	quantile normalization						
Publication Author List	Niola F, Zhao X, Singh D, Sullivan R, Castano A, Verrico A, Zoppoli P, Morvinski D, Sulman E, Barrett L, Zhuang Y, Verma I, Benezra R, Aldape K, Iavarone A, Lasorella A.						
Publication Title	The Id-RAP1 axis is essential for glioma maintenance and residency of glioma cells in the perivascular niche.						
Publication Status	submitted						
Publication Status Term Source REF	EFO						
Protocol Name	P-MTAB-28672	P-MTAB-28673	P-MTAB-28674	P-MTAB-28675	P-MTAB-28676	P-MTAB-28677	P-MTAB-28678
Protocol Type	specified_biomaterial_action	specified_biomaterial_action	nucleic_acid_extraction	labeling	hybridization	image_acquisition	bioassay_data_transformation
Protocol Description	Mice were injected intracranially with a lentivirus expressing the HRasV12-shp53 (to induced brain tumors) linked to the Cre-ER cassette (cre recombinase fused to the estrogen receptor moiety). In this system cre is activated by treatment with tamoxifen in the cells that express HRasV12-shp53 leading to deletion of Id1, Id2 and Id3 only in tumor cells.	Tamoxifen was administered for 4 days at 9mg/40 g of mouse weight, starting 12 days after intracranial transduction to the experimental cohort whereas control mice received vehicle (corn oil).	Total RNA was extracted from quadruplicate samples of mouse HRasV12-shp53 -Cre-ER-IdcTKO induced tumors treated with tamoxifen or vehicle	default illumina labeling	on Illumina MouseRef-8 v2.0 expression BeadChip.	default illumina image acquisition	Quantile normalization
Protocol Term Source REF							
Protocol Hardware						Illumina iScan	
Term Source Name	EFO
Term Source File	http://www.ebi.ac.uk/efo/						
Term Source Version							
SDRF File	E-MTAB-1303.sdrf.txt