Comment[ArrayExpressAccession]	E-GEOD-41866
MAGE-TAB Version	1.1						
Public Release Date	2014-10-24
Investigation Title	Longitudinal expression data from CD4+ T cells responding to LCMV-Armstrong or LCMV-Clone 13						
Comment[Submitted Name]	Longitudinal expression data from CD4+ T cells responding to LCMV-Armstrong or LCMV-Clone 13
Experiment Description	During acute viral infections, naïve CD4+ T cells differentiate into effector CD4+ T cells and, after viral control, into memory CD4+ T cells. Memory CD4+ T cells are highly functional, proliferate rapidly upon reinfection and persist long-term without antigen. In contrast, during chronic infections, CD4+ T cells become less functional. To compare the development of functional memory T cells with poorly functional T cells from chronic viral infection, we generated longitudinal transcriptional profiles for each. Naive CD44Lo CD4+ T cells were isolated and sorted from uninfected C57BL/6 mice and H2-IAb GP66-specific CD4+ T cells were sorted using MHC-II tetramers at d6, 8, 15, and 30 p.i. with either LCMV Arm or LCMV clone 13. RNA from these CD4+ T cells was processed, amplified, labeled, and hybridized to Affymetrix GeneChip MoGene 1.0 st microarrays.						
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	Wherry	Wherry	Crawford	Angelosanto			
Person First Name	E	E	Alison	Jill			
Person Mid Initials	John	J					
Person Email	geo@ncbi.nlm.nih.gov						
Person Affiliation	University of Pennsylvania						
Person Address	University of Pennsylvania, 421 Curie Blvd., Philadelphia, USA						
Person Roles	submitter						
Protocol Name	P-GSE41866-1	P-GSE41866-5	P-GSE41866-6	P-GSE41866-2	P-GSE41866-3	P-GSE41866-4	P-GSE41866-7
Protocol Description	Affymetrix Power Tools were used to process and quantile normalize fluorescent hybridization signals using Robust Multichip Averaging. Transcript values were log2 normalized. ID_REF =  VALUE = log2 RMA signal intensity	Microarrays were washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain	cDNA was amplified with NuGen WT Ovation Pico kit and hybridized to Affymetrix GeneChip Mouse Gene 1.0 ST microarrays at the University of Pennsylvania's Microarray facility	Naive CD44Lo CD4+ T cells were isolated and sorted from uninfected C57BL/6 mice and H2-IAb GP66-specific CD4+ T cells were sorted using MHC-II tetramers at d6, 8, 15, and 30 p.i. with either LCMV Arm or LCMV clone 13.	Naive CD44Lo CD4+ T cells were isolated and sorted from uninfected C57BL/6 mice and H2-IAb GP66-specific CD4+ T cells were sorted using MHC-II tetramers at d6, 8, 15, and 30 p.i. with either LCMV Arm or LCMV clone 13.	Trizol extraction of total RNA was performed according to the manufacturer's instructions.	A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
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	cell type	time dpi	infection				
Experimental Factor Type	cell type	time dpi	infection				
Comment[SecondaryAccession]	GSE41866						
Comment[GEOReleaseDate]	2014-10-24						
Comment[ArrayExpressSubmissionDate]	2012-10-26						
Comment[GEOLastUpdateDate]	2014-10-24						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-41866.sdrf.txt