Comment[ArrayExpressAccession]	E-GEOD-45621
MAGE-TAB Version	1.1						
Public Release Date	2013-10-20
Investigation Title	Mouse ILC2 cells from wild-type or Gfi1-KO animals						
Comment[Submitted Name]	Mouse ILC2 cells from wild-type or Gfi1-KO animals
Experiment Description	Innate type-2 lymphocytes (ILC2s) are a newly described cell type whose biology and contribution to disease are poorly understood. We are interested in investigating the role of the transcription factor Gfi1 in ILC2s, which appear to be a prominent source of IL-5 and IL-13 during type-2 immune responses. We have compelling evidence demonstrating a critical role for Gfi1 in the development and effector state of ILC2s. We would like to elucidate the molecular role of Gfi1 in ILC2s by identifying Gfi1-regulated genes by microarray analysis. Gfi1+/+ or Gfi1GFP/GFP (a GFP cassette has been 'knocked-in' to the Gfi1 locus and thus functions both as a surrogate for Gfi1 promoter activity and as a loss-of-function allele) mice were injected with IL-25 once daily for 4 days. On day 5, ILC2s (Lin-/Sca-1+/ICOS+/CD127+/c-Kit+) were sorted from the mesenteric lymph nodes of Gfi1+/+ (3 mice/sample were pooled together) or Gfi1-/- mice (6 mice/sample were pooled together) and cultured for 6 days in RPMI 1640, 10% FBS, Gln, P/S, 2ME, IL-2 (50ng/ml), IL-7 (10ng/ml), and IL-25 (50ng/ml). Whole RNA was harvested on day 6 via the RNeasy kit (Qiagen).						
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	Abbas	Abbas	Spooner	Singh			
Person First Name	Alex	Alexander	Chauncey	Harinder			
Person Mid Initials		R					
Person Email	abbas@gene.com						
Person Affiliation	Genentech, Inc.						
Person Address	Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA, USA						
Person Roles	submitter						
Protocol Name	P-GSE45621-1	P-GSE45621-4	P-GSE45621-6	P-GSE45621-2	P-GSE45621-5	P-GSE45621-3	P-GSE45621-7
Protocol Description	The data were processed with Agilent Feature Extraction software, version 10.7.3.1, using default settings, including linear and Lowess normalization. ID_REF =  VALUE = Log2 ratio (ch1/ch2) representing test/reference	Biotinylated cRNA were prepared according to the standard Agilent protocol.	cRNA was hybridized on Agilent-026655 Whole Mouse Genome Microarray 4x44K.	Cells were isolated from either wild-type or GFi1 KO mice. Purified ILC2s were cultured for 6 days in RPMI 1640, 10% FBS, Gln, P/S, 2ME, IL-2 (50ng/ml), IL-7 (10ng/ml), and IL-25 (50ng/ml).	Stratagene Universal Mouse Reference RNA (catalog number 740100).	RNeasy Mini Kit (Qiagen).	Chips were scanned using the Agilent Surescan Microarray Scanner.
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	growth protocol	nucleic acid extraction protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	GENOTYPE						
Experimental Factor Type	genotype						
Comment[SecondaryAccession]	GSE45621						
Comment[GEOReleaseDate]	2013-10-20						
Comment[ArrayExpressSubmissionDate]	2013-03-28						
Comment[GEOLastUpdateDate]	2013-10-22						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-45621.sdrf.txt