Comment[ArrayExpressAccession]	E-GEOD-45461
MAGE-TAB Version	1.1											
Public Release Date	2013-03-26
Investigation Title	A global DNA methylation and gene expression analysis of early human B-cell development reveals a demethylation signature and transcription factor network.											
Comment[Submitted Name]	A global DNA methylation and gene expression analysis of early human B-cell development reveals a demethylation signature and transcription factor network.
Experiment Description	This SuperSeries is composed of the SubSeries listed below. Refer to individual Series											
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	Lee											
Person First Name	Seung-Tae											
Person Email	essere2@naver.com											
Person Affiliation	Samsung Medical Center											
Person Phone	+82-2-3410-2710											
Person Fax	+82-2-3410-2719											
Person Address	Laboratory Medicine & Genetics, Samsung Medical Center, 50 Iron-Dong KanangmGu, Seoul, - None -, South Korea											
Person Roles	submitter											
Protocol Name	P-GSE45461-1	P-GSE45461-2	P-GSE45461-11	P-GSE45461-6	P-GSE45461-10	P-GSE45461-5	P-GSE45461-8	P-GSE45461-3	P-GSE45461-4	P-GSE45461-9	P-GSE45461-12	P-GSE45461-7
Protocol Description	ID_REF =  VALUE = Average Beta Detection Pval = 	ID_REF =  VALUE = RMA normalized signal intensity	GeneChips were scanned using the Affymetrix genechip scanner	Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting	Following fragmentation, cRNA were hybridized onto GeneChip Human Gene 1.0 ST Array (Affymetrix) according to Affymetrix's instructions.	bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol	Four stages of B-cell precursors were isolated via flow cytometry sorting	AllPrep DNA/RNA Mini Kit (Qiagen) according to manufacturer's instructions	Standard Illumina Protocol	1 μg of high-quality total RNA was amplified and labeled (NuGen Ovation)	Data was processed and normalized using the Expression Console software (Affymetrix) with the standard Robust Multi-array Average (RMA) algorithm	Illumina GenomeStudio software matrix signal intensities value definition:Unmethylated and methylated signal intensities
Protocol Type	bioassay_data_transformation	bioassay_data_transformation	image_aquisition	image_aquisition	hybridization	hybridization	specified_biomaterial_action	nucleic_acid_extraction	labeling	labeling	feature_extraction	feature_extraction
Experimental Factor Name	CELL TYPE	AGE										
Experimental Factor Type	cell type	age										
Publication Title	A global DNA methylation and gene expression analysis of early human B-cell development reveals a demethylation signature and transcription factor network.											
Publication Author List	Lee ST, Xiao Y, Muench MO, Xiao J, Fomin ME, Wiencke JK, Zheng S, Dou X, de Smith A, Chokkalingam A, Buffler P, Ma X, Wiemels JL											
PubMed ID	23074194											
Publication DOI	10.1093/nar/gks957											
Comment[SecondaryAccession]	GSE45461											
Comment[GEOReleaseDate]	2013-03-26											
Comment[ArrayExpressSubmissionDate]	2013-03-24											
Comment[GEOLastUpdateDate]	2013-03-27											
Comment[AEExperimentType]	transcription profiling by array											
Comment[AEExperimentType]	methylation profiling by array											
SDRF File	E-GEOD-45461.sdrf.txt