Comment[ArrayExpressAccession]	E-GEOD-23372
MAGE-TAB Version	1.1						
Public Release Date	2013-10-21
Investigation Title	Intestinal gene expression in 10-day Giardia duodenalis GS infected mice						
Comment[Submitted Name]	Intestinal gene expression in 10-day Giardia duodenalis GS infected mice
Experiment Description	C57BL/6 mice were infected with the GS strain of G. duodenalis and total RNA prepared from the duodenum on day 10. Age matched controls were compared using Affy chips to determine changes in gene expression induced by infection. The majority of induced transcripts are invlved in antibody production. Genes exhibiting the greatest increase in expression are all mast cell transcripts. This is a 4X4 comparison, 4 infected mice and 4 uninfected mice						
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	Singer	Tako	Singer				
Person First Name	Steven	Erenst	Steven				
Person Email	sms3@georgetown.edu						
Person Affiliation	Georgetown University						
Person Phone	202-687-9884						
Person Address	Biology, Georgetown University, 37th & O Sts, NW, Washington, DC, USA						
Person Roles	submitter						
Protocol Name	P-GSE23372-1	P-GSE23372-5	P-GSE23372-6	P-GSE23372-2	P-GSE23372-3	P-GSE23372-4	P-GSE23372-7
Protocol Description	Affymetrix MicroArray Suite Version 5.0 (Affyemtrix, Santa Clara, CA) was used to pre-process the data files. The resulting CHP files were imported into GeneSpring GX version 7.3.1 ID_REF =  VALUE = Signal ABS_CALL = indicating whether the transcript was present (P), absent (A), or marginal (M) DETECTION P-VALUE = 	5-10 M-NM-<g of total RNA from each sample was used to generate double stranded cDNA using a T7 oligo (dT) primer; 1 M-NM-<g of this product was then used in an in vitro transcription reaction in the presence of biotinylated dNTPs using a transcript labeling kit to yield 50-100 M-NM-<g of biotin labeled cRNA target. 20 M-NM-<g of full-length cRNA was subjected to metal catalyzed acid hydrolysis to a length of 20M-bM-^@M-^S200 bp	20 M-5g of fragmented cRNA was hybridized MG_UV74Av2 chips.	Four mice were infected with 1 million trophopzites of G. lmblia strain GS by gavage. 10 days; ater mice were euthanized with CO2 and duodenum was removed.	Female C57BL/6 mice were purchased from Jackson Laboratories	Total RNA was prepared by extraction with RNA-STAT-60 followed by Qiagen RNeasy columns.	The detection and quantitation of target hybridization were performed with a GeneArray Scanner 3000 set to the manufacturer's defaults (Affymetrix, Santa Clara, CA).
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	INFECTION						
Experimental Factor Type	infection						
Comment[SecondaryAccession]	GSE23372						
Comment[GEOReleaseDate]	2013-10-21						
Comment[ArrayExpressSubmissionDate]	2010-08-02						
Comment[GEOLastUpdateDate]	2013-10-23						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-23372.sdrf.txt