Comment[GEAAccession]	E-GEAD-515
MAGE-TAB Version	1.1
Investigation Title	Gene expression profiling in the rat blood exposed to 2-butanone oxime, m-xylylenediamine, 3-cyanopyridine, 2-(2-aminoethylamino)ethanol, and tetrahydrofurfuryl alcohol.
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 administered five chemical substances - 2-butanone oxime, m-xylylenediamine, 3-cyanopyridine, 2-(2-aminoethylamino)ethanol, and tetrahydrofurfuryl alcohol - independently to male for 28 days repeatedly, prepared multiple tissue samples of each animal, and comprehensively investigated gene expression levels in the blood 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	2022-07-24
Protocol Name	P-GEAD-1268	P-GEAD-1269	P-GEAD-1270	P-GEAD-1271	P-GEAD-1272	P-GEAD-1273	P-GEAD-1274	P-GEAD-1275
Protocol Type	nucleic acid extraction protocol	nucleic acid labeling protocol	nucleic acid hybridization to array protocol	array scanning and feature extraction protocol	normalization data transformation protocol	growth protocol	treatment protocol	sample collection protocol
Protocol Description	The obtained blood was immediately mixed together with an ISOGEN-LS reagent (NIPPON GENE, Tokyo, Japan) after dilution with an equal volume of 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's instructions. Poly(A)+ RNA was prepared from total RNA with a Poly(A)Purist Kit (Ambion, TX, USA), according to the manufacturer's instructions.	Labeling, hybridization and subsequent washes of microarrays were performed with a Labeling & Hybridization Kit (MicroDiagnostic), according to the manufacturer's 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.).	Six-week-old male rats (Sprague Dawley; Charles River Laboratory) were purchased and housed in a room maintained at 23degree C+/-2degree C 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.	Treatment Protocol 1 (WFI) Water for injection was orally administered daily for 28 days to male Sprague Dawley rats.,Treatment Protocol 2 (2bo) 2-Butanone oxime was orally administered daily to male Sprague Dawley rats at 100 mg/kg for 28 days.,Treatment Protocol 3 (mxa) m-Xylylenediamine was orally administered daily to male Sprague Dawley rats at 400 mg/kg for 28 days.,Treatment Protocol 4 (3cp) 3-Cyanopyridine was orally administered daily to male Sprague Dawley rats at 180 mg/kg for 28 days.,Treatment Protocol 5 (2ae) 2-(2-Aminoethylamino)ethanol was orally administered daily to male Sprague Dawley rats at 1000 mg/kg for 28 days,Treatment Protocol 6 (Thf) Tetrahydrofurfuryl alcohol was orally administered daily to male Sprague Dawley rats at 600 mg/kg for 28 days	Six-week-old male rats (Sprague Dawley; Charles River Laboratory) were purchased and housed in a room maintained at 23degree C+/-2degree C 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.
SDRF File	E-GEAD-515.sdrf.txt
Comment[Number of channel]	dual-channel
Comment[Array Design REF]	A-GEAD-19
Comment[AEExperimentType]	transcription profiling by array
Comment[SecondaryAccession]	CBX93
Comment[BioProject]	PRJDB13965
Comment[CIBEX Accept Date]	2010-01-01
Comment[CIBEX Public Release Date]	2009-07-15
Comment[Last Update Date]	2022-07-25