Comment[ArrayExpressAccession]	E-GEOD-33959
MAGE-TAB Version	1.1						
Public Release Date	2012-08-31
Investigation Title	Using microarrays to investigate differential gene expression in gills from smallmouth bass after various exposures.						
Comment[Submitted Name]	Using microarrays to investigate differential gene expression in gills from smallmouth bass after various exposures.
Experiment Description	The purpose of this study was to investigate differentially expressed genes in gill and liver tissue from smallmouth bass (Micropterus dolomieu) after exposure to various treatments, compared to controls.  The treatments consisted of bacteria, estradiol, and a mixture of bacteria plus estradiol. Four-condition experiment with biological replicates: 4 control replicates, 4 of each treatment for liver and gill tissue.						
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	Carter	Robertson	Carter				
Person First Name	Barbara	Laura	Barbara				
Person Mid Initials	Joan	S	J				
Person Email	bcarter@appliedfoodtechnologies.com						
Person Affiliation	Applied Food Technologies						
Person Phone	(386) 462-5611						
Person Fax	(386) 462-0875						
Person Address	Applied Food Technologies, 12085 Research Drive, Alachua, FL, USA						
Person Roles	submitter						
Protocol Name	P-GSE33959-1	P-GSE33959-6	P-GSE33959-5	P-GSE33959-3	P-GSE33959-2	P-GSE33959-4	P-GSE33959-7
Protocol Description	ID_REF =  VALUE = lowess normalized ratio Cy5/Cy3	Slides were scanned with an Agilent DNA microarray scanner, and raw images were processed using AgilentM-bM-^@M-^Ys Feature Extraction Software, Version 10.1.1.1.	The microarrays were hybridized in Agilent hybridization chambers and incubated overnight (17 hrs.) in a rotisserie oven (Model G2545A, Agilent) at 65M-0C.	Not provided	Adults used	Total RNA samples (900 ng each) were labeled using AgilentM-bM-^@M-^Ys Two-Color Microarray-Based Gene Expression Analysis (Quick Amp Labeling), version 5.7, March 2008 (no. 5190-4444).	Gene Spring version GX11; any value <1.0 was set to 1.0; No baseline transformation. Data were normalized using LOWESS (Locally Weighted Least Squares Regression). No MTC applied.
Protocol Type	bioassay_data_transformation	image_aquisition	hybridization	nucleic_acid_extraction	grow	labeling	feature_extraction
Experimental Factor Name	ORGANISM	TREATMENT	SAMPLE ID	SEX			
Experimental Factor Type	Organism	treatment	sample id	Sex			
Comment[SecondaryAccession]	GSE33959						
Comment[GEOReleaseDate]	2012-08-31						
Comment[ArrayExpressSubmissionDate]	2011-11-26						
Comment[GEOLastUpdateDate]	2012-09-01						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-33959.sdrf.txt