Comment[ArrayExpressAccession]	E-GEOD-46128
MAGE-TAB Version	1.1							
Public Release Date	2013-08-09
Investigation Title	Expression data in Arabidopsis wild type, ahg2-1 and ahg2-1ags1-1 mutants							
Comment[Submitted Name]	Expression data in Arabidopsis wild type, ahg2-1 and ahg2-1ags1-1 mutants
Experiment Description	We applied the tiling arrays to study the Arabidopsis whole-genome transcriptome in Arabidopsis wild type, ahg2-1 and ahg2-1ags1-1 mutants. The total RNA was prepared from 15-day-old Arabidopsis plants grown on the agar plates and used for the microarray hybridization. Three replicative hybridization experiments for each strand array were carried out using the independent biological RNA samples.							
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	Seki	Kurihara	Hirayama	Tanaka	Morosawa	Toyoda	Mochizuki	Seki
Person First Name	Motoaki	Yukio	Takashi	Maho	Taeko	Tetsuro	Yoshiki	Motoaki
Person Email	mseki@psc.riken.jp							
Person Affiliation	RIKEN							
Person Address	Plant Science Center, RIKEN, 1-7-22, Suehiro-cho, Tsurumi-ku, Yokohama, Japan							
Person Roles	submitter							
Protocol Name	P-GSE46128-4	P-GSE46128-5	P-GSE46128-1	P-GSE46128-2	P-GSE46128-3	P-GSE46128-6		
Protocol Description	Eight to fifteen mg of total RNA per one sample was used for synthesis of double-stranded cDNA by the GeneChip One-Cycle cDNA Synthesis Kit (Affymetrix) using an oligo(dT) primer containing the T7 RNA polymerase promoter.	Following fragmentation, about 10 mg of cRNA was hybridized with the GeneChip Arabidopsis tiling array using the Hybridization Control Kit (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.	None.	Plants (Arabidopsis thaliana ecotype Columbia) were grown in the plastic dishes (30 plants per plastic dish) containing GM agar (0.85%) medium supplemented with 1% sucrose for 15 days under 16-h-light/8-h-dark (40-80 mmol photons m-2 sec-1) essentially as described previously (Oono et al. 2003, Plant J. 34: 868-887).	ISOGEN (Nippon Gene Co., Toyama, Japan) extraction of total RNA from untreated seedling samples was performed according to the manufacturer's instructions.	GeneChips were scanned at 0.7 mm resolution using the GeneChip Scanner 3000 7G (Affymetrix).		
Protocol Type	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol		
Experimental Factor Name	GENOTYPE							
Experimental Factor Type	genotype							
Comment[SecondaryAccession]	GSE46128							
Comment[GEOReleaseDate]	2013-08-09							
Comment[ArrayExpressSubmissionDate]	2013-04-16							
Comment[GEOLastUpdateDate]	2013-08-09							
Comment[AEExperimentType]	transcription profiling by tiling array							
SDRF File	E-GEOD-46128.sdrf.txt