Comment[ArrayExpressAccession]	E-GEOD-13234
MAGE-TAB Version	1.1					
Public Release Date	2009-04-20
Investigation Title	Human activated Treg cells and retrovirally engineered Th cells, transduced with GARP, FOXP3 or control GFP vector					
Comment[Submitted Name]	Human activated Treg cells and retrovirally engineered Th cells, transduced with GARP, FOXP3 or control GFP vector
Experiment Description	Goals and objectives of this study: to identify genes of the Treg signature induced by consitutive expression of GARP or FOXP3 in antigen-specific Th cells with potential role for stabililization & maintenance of the regulatory program.  Keywords: T-cell receptor stimulation, gene-regulation, comparative gene expression profiling, cell type comparison, human, regulatory T cells, FOXP3, GARP Human alloantigen-specific Treg cells (THU) and Th cells (CD4-39), established and described recently (Ocklenburg et al.. Lab Invest.2006; 86: 724-737), were sitmulated for 3 days  with cognate antigen (EBV B cells) and IL2 as described  (Ocklenburg et al.. Lab Invest.2006; 86: 724-737) and analyzed using human Affymetrix U133 2.0 in monoplicate. Th cells had been transduced with a retroviral vector containing human GARP (LRRC32) or FOXP3 and an IRES-driven GFP as marker or empty GFP control, sorted for GFP+, expanded as described recently (Ocklenburg et al.. Lab Invest.2006; 86: 724-737), and characterized functially, phenotypically, and genetically as described (WO/2007/113301). Abbreviations: Treg THU d3 = alloantigen-specific Treg cells; GFP d3 = GFP-transduced alloantigen-specific Th cells (CD4-39); FoxP3 d3 = FOXP-transduced alloantigen-specific Th cells (CD4-39); Garp d3 = GARP-transduced alloantigen-specific Th cells (CD4-39); all stimulated for 3 days (=d3) with EBV B cells and IL2.					
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	Geffers	Geffers	Probst-Kepper			
Person First Name	Robert	R	M			
Person Email	robert.geffers@helmholtz-hzi.de					
Person Affiliation	HCI - Helmholtz Centre for Infection Research					
Person Phone	+49 531-6181-3058					
Person Fax	+49 531-6181-3099					
Person Address	Dep. Cell Biology, HCI - Helmholtz Centre for Infection Research, Inhoffenstr. 7, Braunschweig, Germany					
Person Roles	submitter					
Protocol Name	P-GSE13234-1	P-GSE13234-5	P-GSE13234-4	P-GSE13234-2	P-GSE13234-3	P-GSE13234-6
Protocol Description	ID_REF =  VALUE = MAS5-calculated Signal intensity ABS_CALL = the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC) DETECTION P-VALUE = 'detection p-value', p-value that indicates the significance level of the detection call	GeneChips were scanned using the Affymetrix GCS 3000.	Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.	Rneasy	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).	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 150.
Protocol Type	bioassay_data_transformation	image_aquisition	hybridization	nucleic_acid_extraction	labeling	feature_extraction
Publication Title	GARP: a key receptor controlling FOXP3 in human regulatory T cells.					
Publication Author List	Probst-Kepper M, Geffers R, Kr�ger A, Viegas N, Erck C, Hecht HJ, L�nsdorf H, Roubin R, Moharregh-Khiabani D, Wagner K, Ocklenburg F, Jeron A, Garritsen H, Arstila TP, Kek�l�inen E, Balling R, Hauser H, Buer J, Weiss S					
PubMed ID	19453521					
Publication DOI	10.1111/j.1582-4934.2009.00782.x					
Comment[SecondaryAccession]	GSE13234					
Comment[GEOReleaseDate]	2009-04-20					
Comment[ArrayExpressSubmissionDate]	2008-10-16					
Comment[GEOLastUpdateDate]	2013-01-14					
Comment[AEExperimentType]	transcription profiling by array					
SDRF File	E-GEOD-13234.sdrf.txt