Comment[GEAAccession]	E-GEAD-527
MAGE-TAB Version	1.1
Investigation Title	Gene expression profiling in the rat prostate exposed to tetrabromoethane, dibutyl adipate, p-ethylphenol, o-t-butylphenol, and p-(1,1,3,3-tetramethylbutyl)phenol.
Experiment Description	Toxicology principally investigates the influence of chemical substances onto living organisms by use of biological indicators detected by experimental methods including biochemical, immunological, and pathological approaches that require method-specific multiple platforms.  In contrast, recently developed genomics enables to employ thousands of genes as parameters to assess diverse biological phenomena on a single platform such as gene expression profiling.  Thus, the integration of genomics into toxicology should exploit novel fields for the biological assessment of substances, describing alterations after exposure of substances to animals or cultured cells with multiple parameters in a single platform across diverse specimens.   In this study, we administrated five chemical substances - tetrabromoethane, dibutyl adipate, p-ethylphenol, o-t-butylphenol, and p-(1,1,3,3-tetramethylbutyl)phenol - independently to male for 28 days repeatedly, prepared multiple tissue samples of each animal, and comprehensively investigated gene expression levels in the prostate with DNA microarrays containing probes representing approximately 11,000 species of rat transcripts.  We expect the data obtained in this study may contribute to establish novel accurate approaches for the assessment of chemical substances existing and generated in the future by comparing with the previously accumulated findings obtained by repeated dose 28-day oral administration to rats.
Experimental Design	compound treatment design	reference design
Experimental Factor Name	treatment
Experimental Factor Type	treatment
Person Last Name	Morisawa	Watanabe
Person First Name	Gaku	Shinya
Person Affiliation	Fukushima Global Medical Science Center, Fukushima Medical University	
Person Roles	submitter	submitter
Public Release Date	2022-08-01
Protocol Name	P-GEAD-1349	P-GEAD-1350	P-GEAD-1351	P-GEAD-1352	P-GEAD-1353	P-GEAD-1354	P-GEAD-1355
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid labeling protocol	nucleic acid hybridization to array protocol	array scanning and feature extraction protocol	normalization data transformation protocol	treatment protocol
Protocol Description	Six-week-old male Sprague Dawley rats (Charles River Laboratory) were purchased and housed in a room maintained at 23???}2?? with 55%?}10% relative humidity, and lighting was maintained for 12 hr daily. All animals were allowed free access to commercial rodent chow, MF (Oriental Yeast Co.) and to tap water	The obtained solid organs were immediately frozen in liquid nitrogen and lysed with an ISOGEN reagent (NIPPON GENE). Total RNA was prepared from the lysate according to the manufacturer?fs instructions. Poly(A)+ RNA was prepared from total RNA with a Poly(A)Purist Kit (Ambion, Tx, USA), according to the manufacturer?fs instructions.	Labeling, hybridization and subsequent washes of microarrays were performed with a Labeling & Hybridization Kit (MicroDiagnostic), according to the manufacturer?fs instructions.	Hybridization and subsequent washes of arrays were performed with a Labeling and Hybridization Kit (MicroDiagnostic, Tokyo, Japan).	Hybridization signals were measured with a GenePix 4000b scanner (Axon Instruments Inc., Union City, CA). Measured hybridization signals were processed into primary expression ratios (ratios of cyanine 5 intensity of each sample to cyanine 3 intensity of the rat common reference RNA) by the GenePix Pro 6.0 software (Axon Instruments Inc.).	Normalization was performed for each ratio by multiplying the normalization factors calculated by the GenePix Pro 6.0 software (Axon Instruments Inc.).	Treatment Protocol 1 (Oil):Olive oil wes orally administrated daily to male Sprague-Dawley rats for 28 days.,Treatment Protocol 2 (tbe):Tetrabromoethane was orally administrated daily to male Sprague-Dawley rats at 200 mg/kg for 28 days.,Treatment Protocol 3 (dba):Dibutyl adipate was orally administrated daily to male Sprague Dawley rats at 1000 mg/kg for 28 days.,Treatment Protocol 4 (pep):p-Ethylphenol was orally administrated daily to maleSprague Dawley rats at 1000 mg/kg for 28 days.,Treatment Protocol 5 (tbp):??-??-butylphenol was orally administrated daily to male Sprague Dawley rats at 500 mg/kg for 28 days.,Treatment Protocol 6 (tmp):p-(1,1,3,3-Tetramethylbutyl)phenol was orally administrated daily to male Sprague Dawley rats at 300 mg/kg for 28 days.
SDRF File	E-GEAD-527.sdrf.txt
Comment[Number of channel]	dual-channel
Comment[Array Design REF]	A-GEAD-19
Comment[AEExperimentType]	transcription profiling by array
Comment[SecondaryAccession]	CBX124
Comment[BioProject]	PRJDB13975
Comment[CIBEX Accept Date]	2010-01-01
Comment[CIBEX Public Release Date]	2010-03-02
Comment[Last Update Date]	2022-08-01