Comment[ArrayExpressAccession]	E-GEOD-39153
MAGE-TAB Version	1.1						
Public Release Date	2012-09-05
Investigation Title	Transcript profiling of Lin-Sca-1+c-Kit+ (LSK) cells from mice reconstituted with wild type and necdin null fetal liver cells following a sublethal dose of irradiation (6,5 Gy)						
Comment[Submitted Name]	Transcript profiling of Lin-Sca-1+c-Kit+ (LSK) cells from mice reconstituted with wild type and necdin null fetal liver cells following a sublethal dose of irradiation (6,5 Gy)
Experiment Description	compare the gene expression profile between irradiated Lin-Sca-1+c-Kit+ (LSK) cells from mouse bone marrow reconstituted with wild type and necdin null fetal liver cells The Affymetrix oligonucleotide array was used for this analysis compare the gene expression profile betweenirradiated Lin-Sca-1+c-Kit+ (LSK) cells from mouse bone marrow reconstituted with wild type and necdin null fetal liver cells						
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	Zhao	Nimer	Asai				
Person First Name	Jeffrey	Stephen	Takashi				
Person Mid Initials		D					
Person Email	zhaoy@mskcc.org						
Person Affiliation	Memorial Sloan Kettering Cancer Center						
Person Address	Genomics Core, Memorial Sloan Kettering Cancer Center, 1275 York Avenue, New York, RRL417A, USA						
Person Roles	submitter						
Protocol Name	P-GSE39153-1	P-GSE39153-6	P-GSE39153-5	P-GSE39153-2	P-GSE39153-3	P-GSE39153-4	P-GSE39153-7
Protocol Description	ID_REF =  VALUE = Signal ABS_CALL = indicating whether the transcript was present (P), absent (A), or marginal (M) DETECTION P-VALUE = 	GeneChips were scanned using the Addymetrix 3000 7G Scanner.	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.	Mice were sublethally irradiated at 6.5 Gy	Extraction of total RNA was performed by Rneasy Plus Mini Kit (Qiagen) according to the manufacturer's instructions.	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA.	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Protocol Type	bioassay_data_transformation	image_aquisition	hybridization	specified_biomaterial_action	nucleic_acid_extraction	labeling	feature_extraction
Experimental Factor Name	GENOTYPE						
Experimental Factor Type	genotype						
Publication Title	Necdin, a p53 target gene, regulates the quiescence and response to genotoxic stress of hematopoietic stem/progenitor cells.						
Publication Author List	Asai T, Liu Y, Di Giandomenico S, Bae N, Ndiaye-Lobry D, Deblasio A, Menendez S, Antipin Y, Reva B, Wevrick R, Nimer SD						
PubMed ID	22776820						
Publication DOI	10.1182/blood-2011-11-393983						
Comment[SecondaryAccession]	GSE39153						
Comment[GEOReleaseDate]	2012-09-05						
Comment[ArrayExpressSubmissionDate]	2012-07-06						
Comment[GEOLastUpdateDate]	2012-09-12						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-39153.sdrf.txt