Investigation Title	Infection of Macaques with SIVmac251 in vivo	
Comment[Submitted Name]	Infection of Macaques with SIVmac251 in vivo	
Experimental Design	transcription profiling by array	
Experimental Design Term Source REF	EFO	
Comment[AEMIAMESCORE]	2	
Comment[SecondaryAccession]	GSE7157	
Comment[ArrayExpressReleaseDate]	2010-06-11	
Comment[ArrayExpressAccession]	E-GEOD-7157	
Comment[MAGETAB TimeStamp_Version]	2010-08-07 17:58:20 Last Changed Rev: 13058	
Experimental Factor Name	
Experimental Factor Type	
Experimental Factor Term Source REF	
Person Last Name	Vahey	
Person First Name	Maryanne	
Person Mid Initials	
Person Email	mvahey@hivresearch.org	
Person Phone	
Person Fax	
Person Address	Laboratory of Functional Genomics,  , Walter Reed Army Institute of Research, 1600 East Gude Drive, Rockville, 20850, USA	
Person Affiliation	Walter Reed Army Institute of Research	
Person Roles	submitter	
Person Roles Term Source REF		
Quality Control Type	
Quality Control Term Source REF	
Replicate Type	
Replicate Term Source REF	
Normalization Type	
Normalization Term Source REF	
Date of Experiment	
Public Release Date	2010-06-11	
PubMed ID	
Publication DOI	
Publication Author List	
Publication Title	
Publication Status	
Publication Status Term Source REF	
Experiment Description	Viral infection results in an overall downregulation of gene expression that is greatest by the viral set point. Of the 3647 genes downregulated at the viral set point, 1033 are upregulated as the result of successful ARV treatment Keywords: time course Affymetrix Rhesus Genome array were used to assay gene expression profiles at baseline, and 2-, 20- and 26- weeks after infection. Drug therapy started at week24	
Protocol Name	P-GSE7157-2	P-GSE7157-3	P-GSE7157-4	P-GSE7157-5	P-GSE7157-6	P-GSE7157-1	
Protocol Type	nucleic_acid_extraction	labeling	hybridization	image_aquisition	feature_extraction	bioassay_data_transformation	
Protocol Description	According to Affymetrix's protocol	According to Affymetrix's protocol	According to Affymetrix's protocol	Affymetrix 3000 series scanner	The data were analyzed with MAS5.0 using Affymetrix default settings	ID_REF = Affymetrix ID<br>VALUE = signal intensity output from MAS5.0<br>ABS_CALL = the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M)<br>DETECTION P-VALUE = p-value that indicates the significance level of the detection call	
Protocol Parameters	
Protocol Hardware	
Protocol Software	
Protocol Contact	
Protocol Term Source REF			The MGED Ontology		The MGED Ontology	
SDRF File	E-GEOD-7157.sdrf.txt	
Term Source Name	The MGED Ontology	ArrayExpress	EFO	The MGED Ontology	
Term Source File	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/arrayexpress	http://www.ebi.ac.uk/efo/	http://mged.sourceforge.net/ontologies/MGEDontology.php	
Term Source Version