Investigation Title	Transcription profiling of immature rat uterus ovaries in response to 17-alpha-ethynyl estradiol	
Comment[Submitted Name]	Evaluation of the gene expression changes induced by 17-alpha-ethynyl estradiol [CAS:57-63-6;CHEBI:4903] in the immature uterus/ovaries of the rat using high density oligonucleotide arrays.	
Experimental Design	dose_response_design	compound_treatment_design	transcription profiling by array	
Experimental Design Term Source REF		mo	EFO	
Comment[ArrayExpressReleaseDate]	2006-11-14	
Comment[AEMIAMESCORE]	4	
Comment[ArrayExpressAccession]	E-TOXM-20	
Comment[MAGETAB TimeStamp_Version]	2010-10-14 15:46:43 Last Changed Rev: 14677	
Experimental Factor Name	dose	time	compound	vehicle	
Experimental Factor Type	dose	time	compound_treatment_design	vehicle	
Experimental Factor Term Source REF	
Person Last Name	Naciff	
Person First Name	Jorge	
Person Mid Initials	M	
Person Email	naciff.jm@pg.com	
Person Phone	(513) 627-1761	
Person Fax	
Person Address	
Person Affiliation	Miami Valley Innovation Center, The Procter and Gamble Company	
Person Roles	submitter	
Person Roles Term Source REF		
Quality Control Type	pooling	Technical replicates is one of quality control steps which may be take place	Biological replicates is one of quality control steps which may be take place	
Quality Control Term Source REF	
Replicate Type	
Replicate Term Source REF	
Normalization Type	
Normalization Term Source REF	
Date of Experiment	
Public Release Date	2006-11-14	
PubMed ID	
Publication DOI	
Publication Author List	Naciff JM, Torontali SM, Overmann GI, Carr GJ, Tiesman JP, Daston GP.	
Publication Title	Evaluation of the gene expression changes induced by 17-alpha-ethynyl estradiol in the immature uterus/ovaries of the rat using high density oligonucleotide arrays.	
Publication Status	
Publication Status Term Source REF	
Experiment Description	BACKGROUND: In a previous study, we determined the effects of 17-alpha-ethynyl estradiol (EE) [CAS:57-63-6;CHEBI:4903] on gene expression using microarrays that represented approximately 9,000 genes, which was the state of-the-art. Higher content arrays with almost double the number of genes have since become available. In order to better determine whether common sets of gene expression changes can be predictive of estrogenic activity, we have replicated the previous experiment using the more comprehensive microarray. METHODS: Immature 20-day-old Sprague-Dawley rats were exposed to 0.1, 1, and 10 microg EE/kg/day ( subcutaneously [s.c.]), for four days, dosing from postnatal day (PND) 20-23). Changes in a more comprehensive expression level of 15,923 rat annotated genes and expressed sequence tags were evaluated on PND 24. RESULTS: By comparing the response of the treatment groups versus controls using various statistical parameters, we determined that the expression of 1,394 genes showed a significant change with respect to control (p less than or =0.0001), to at least one of the EE dosages. The tissues from animals exposed to 0.1 microg EE/kg/day showed changes in the expression of only 33 genes, whereas when they were exposed to 1 or 10 microg EE/kg/day, the expression of 409 and 548 genes was modified, respectively. A dose-dependent analysis indicated that 592 genes showed a robust and significant response to EE exposure (increased or decreased). Our analysis confirmed the regulation of previously identified estrogen-sensitive genes, and clearly identified novel mediators of estrogen actions, both in the uterus as well as in the ovary. CONCLUSIONS: This compendium of genes represents the largest compilation of estrogen-responsive genes that has ever been identified for the immature uterus and ovary of any species, and can be used to generate testable hypothesis to improve the understanding of the molecular pathways associated with physiological and pathophysiological responses to exposure to chemicals with estrogenic properties.	
Protocol Name	P-TOXM-357	P-TOXM-243	P-TOXM-244	P-TOXM-245	P-TOXM-247	P-TOXM-246	
Protocol Type	grow	nucleic_acid_extraction	labeling	hybridization	feature_extraction	image_acquisition	
Protocol Description	   -Acclimatization:<br>   5 days.<br>   -Diet:<br>   Purina Mills Rodent Standard Diet 5001.<br>   <br>   -Housing:<br>   -cage type:No data available.Animal cages, racks and cage mats were changed regularly, and the animal room was cleaned on a regular basis.<br>   -temperature:No data available.<br>   -humidity: 30-70%.<br>   -light cycle: 12hr/12hr day/night cycle.<br>   -population density: 1 animal per cage   .<br>   -Legal Notice:<br>   Animal protocols were approved by our Institutional Animal Care and Use Committee.<br>	Total RNA from liver was isolated with RNA STAT-60 (Tel-Test) according to the manufacturer’s protocol.	Default Affymetrix Labelling protocol	Default Affymetrix Hybridization protocol	Default Affymetrix FeatureExtraction Protocol	Default Scanning Protocol	
Protocol Parameters		Amplification Kit;Amount of starting material;RNA Quality Control;Amount of RNA for amplification;	Amount of nucleic acid labeled;Label used;Amplification rounds;	Hybridization Chamber Type;Hybridization Temperature;Amount of labeled target;	
Protocol Hardware					Scanning hardware	Scanning hardware	
Protocol Software					MAS 5.0 software	MAS 5.0 software	
Protocol Contact	
Protocol Term Source REF	
SDRF File	E-TOXM-20.sdrf.txt	
Term Source Name	mo	The MGED Ontology	ArrayExpress		NCI_thesaurus	mo	EFO	
Term Source File	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/arrayexpress		ncithesaurus.obo.alt	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/efo/	
Term Source Version