Comment[ArrayExpressAccession]	E-GEOD-49076
MAGE-TAB Version	1.1				
Public Release Date	2013-07-23
Investigation Title	Transcriptional profiling of Salmonella typhimurium in the ceca of gnotobiotic mice				
Comment[Submitted Name]	Transcriptional profiling of Salmonella typhimurium in the ceca of gnotobiotic mice
Experiment Description	Transcriptional profiling of Salmonella typhimurium in the ceca of germ-free and Bacteroides thetaiotaomicron-monoassociated gnotobiotic mice. Comparison with response in MM-Glucose. In vivo transcriptional profiles of Salmonella typhimurium obtained from biological triplicate samples taken from cecal contents of germ-free and Bacteroides thetaiotaomicron-monoassociated mice 5 days post-infection with S. typhimurium. Biological duplicate samples from in vitro culture of S. typhimurium in MM-Glucose used for comparision.				
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	Sonnenburg	Ng	Sonnenburg		
Person First Name	Justin	K	J		
Person Mid Initials		M	L		
Person Email	jsonnenburg@stanford.edu				
Person Affiliation	Stanford University				
Person Phone	650-721-1510				
Person Address	Microbiology and Immunology, Stanford University, 299 Campus Drive, Stanford, CA, USA				
Person Roles	submitter				
Protocol Name	P-GSE49076-1	P-GSE49076-3	P-GSE49076-4	P-GSE49076-2	P-GSE49076-5
Protocol Description	The raw data were RMA-MS normalized using R-2.9.1. and log2 transformed, excluding other species present on chip. ID_REF =  VALUE = log2 RMA normalized signal	Enzo Biochemicals Bioarray terminal labeling kit	standard Affymetrix protocol	Phenol-chloroform with bead-beating, Qiagen Rneasy mini column extraction, Ambion DNA free treatment	standard Affymetrix protocol
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	TREATMENT				
Experimental Factor Type	treatment				
Comment[SecondaryAccession]	GSE49076				
Comment[GEOReleaseDate]	2013-07-23				
Comment[ArrayExpressSubmissionDate]	2013-07-22				
Comment[GEOLastUpdateDate]	2013-07-24				
Comment[AEExperimentType]	transcription profiling by array				
SDRF File	E-GEOD-49076.sdrf.txt