Comment[ArrayExpressAccession]	E-GEOD-49851
MAGE-TAB Version	1.1									
Public Release Date	2013-08-14
Investigation Title	Dentate gyrus in epileptic rats									
Comment[Submitted Name]	Dentate gyrus in epileptic rats
Experiment Description	This SuperSeries is composed of the SubSeries listed below. Refer to individual Series									
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	Lukasiuk									
Person First Name	Katarzyna									
Person Email	k.lukasiuk@nencki.gov.pl									
Person Affiliation	Nencki Institute of Experimental Biology Polish Academy of Sciences									
Person Address	Department of Molecular and Cellular Neurobiology, Nencki Institute of Experimental Biology Polish Academy of Sciences, 3 Pasteur Street, Warsaw, Poland									
Person Roles	submitter									
Protocol Name	P-GSE49851-2	P-GSE49851-1	P-GSE49851-5	P-GSE49851-8	P-GSE49851-9	P-GSE49851-6	P-GSE49851-3	P-GSE49851-4	P-GSE49851-10	P-GSE49851-7
Protocol Description	The quantified signals were background corrected (Normexp with offset value 10, see Ritchie et al. 2007) and normalized using quantile normalization method. [Service conducted at Exiqon Services, Denmark.] ID_REF =  VALUE = log2 quantile normalized signal intensity Hy3	R/Bioconductor RMA algorithm implemented in oligo package ver 1.22.0 ID_REF =  VALUE = log2 RMA signal	100 ng of total mRNA was used for cDNA synthesis using Ambion WT Expression Kit (Life Technologies #4411974).	750 ng total RNA from sample was labeled with Hy3TM fluorescent label, using the miRCURY LNATM microRNA Hi-Power Labeling Kit, Hy3TM/Hy5TM (Exiqon, Denmark) following the procedure described by the manufacturer. The Hy3TM-labeled samples were hybridized to the miRCURY LNATM microRNA Array 7'th (Exiqon, Denmark), which contains capture probes targeting all microRNAs for human, mouse or rat registered in the miRBASE 18.0. [Service conducted at Exiqon Services, Denmark.]	The hybridization was performed according to the miRCURY LNATM microRNA Array Instruction manual using a Tecan HS4800TM hybridization station (Tecan, Austria). [Service conducted at Exiqon Services, Denmark.]	Affymetrix guidelines for GeneAtlas instrument	Amygdala electrical stimulation model of temporal lobe epilepsy.	Total RNA including miRNA was isolated from the left dentate gyrus region from hippocampi isolated on ice and placed in RNAlater solution (Ambion, AM7024) and stored at -20C until use. Isolation from dissected left dentate gyrus was performed by miRNease Mini kit (QIAGEN, 217004), according to the manufacturer's instructions.	The microarray slides were scanned and stored in an ozone free environment (ozone level below 2.0 ppb) in order to prevent potential bleaching of the fluorescent dyes. The miRCURY LNATM microRNA Array slides were scanned using the Agilent G2565BA Microarray Scanner System (Agilent Technologies, Inc., USA) and the image analysis was carried out using the ImaGene 9.0 software (BioDiscovery, Inc., USA). [Service conducted at Exiqon Services, Denmark.]	Affymetrix GeneAtlas System
Protocol Type	normalization data transformation protocol	normalization data transformation protocol	labelling protocol	labelling protocol	hybridization protocol	hybridization protocol	sample treatment protocol	nucleic acid extraction protocol	array scanning protocol	array scanning protocol
Experimental Factor Name	TREATMENT	DAYS AFTER STIMULATION								
Experimental Factor Type	treatment	days after stimulation								
Comment[SecondaryAccession]	GSE49851									
Comment[GEOReleaseDate]	2013-08-14									
Comment[ArrayExpressSubmissionDate]	2013-08-13									
Comment[GEOLastUpdateDate]	2013-08-15									
Comment[AEExperimentType]	transcription profiling by array									
SDRF File	E-GEOD-49851.sdrf.txt