Comment[ArrayExpressAccession]	E-GEOD-43773
MAGE-TAB Version	1.1					
Public Release Date	2013-01-26
Investigation Title	Differentially expressed genes in human hippocampus and Tera-1 cell line versus HepG2, A549, NT2/D1 and NGP127 cells.					
Comment[Submitted Name]	Differentially expressed genes in human hippocampus and Tera-1 cell line versus HepG2, A549, NT2/D1 and NGP127 cells.
Experiment Description	We discovered a new tissue specific enhancer originated from the human spesific endogenous retrovirus (hsERV). This enhancer displayed its activity in hippocampus and Tera-1 cell line as opposed to HepG2, A549, NT2/D1 and NGP127 cells. The aim of this study was to find transcription factors responsible for the hsERV enhancer activity. So we attempted to identify a fraction of transcription factor genes that were upregulated in enhancer-positive cells. Total RNA obtained from human hippocampus and Tera-1, HepG2, A549, NT2/D1 and NGP127 cell lines.					
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	Suntsova	Suntsova	Buzdin			
Person First Name	Maria	Maria	Anton			
Person Mid Initials	Vladimirovna	V	A			
Person Email	suntsova86@mail.ru					
Person Affiliation	M.M. Shemyakin and Yu.A. Ovchinnikov  Institute of  bioorganic chemistry of the Russian Academy of Sciences					
Person Phone	+79261076626					
Person Fax	+7 (495) 330-65-38					
Person Address	Department of Genetics and Postgenomic Technologies, M.M. Shemyakin and Yu.A. Ovchinnikov  Institute of  bioorganic chemistry of the Russian Academy of Sciences, Miklukho-Maklaya, 16/10, Moscow, Russia					
Person Roles	submitter					
Protocol Name	P-GSE43773-1	P-GSE43773-4	P-GSE43773-5	P-GSE43773-2	P-GSE43773-3	P-GSE43773-6
Protocol Description	Data aquisition and analysis were done by GenomeStudio software (Illumina) using gene expression module (GSGX v.1.8). ID_REF =  VALUE = quantile normalized Detection Pval = 	Biotinylated cRNA were prepared with the IlluminaM-. TotalPrepM-bM-^DM-" RNA Amplification Kit (Ambion).	RNA was quantified using Nanodrop and quality was checked by Agilent Total RNA 6000 chip. 400 ng of total RNA was amplified by IlluminaM-. TotalPrepM-bM-^DM-" RNA Amplification Kit (Ambion). Amplified RNA was hybridized with HumanHT-12 gene expression array (Illumina)M-  according to Illumina protocol.	Cells were grown on DMEM/F12 medium containing 10% fetal calf serum (Invitrogen) at 37M-0C and 5% CO2. Hippocampus sample was obtained postmortem and stored in RNAlater at -70M-0C.	TotalM-  RNA was extracted from samples with Trizol reagent according to manufacture instruction.	Standard Illumina scanning protocol
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	CELL LINE	CELL TYPE				
Experimental Factor Type	cell line	cell type				
Publication Title	Human-specific endogenous retroviral insert serves as an enhancer for the schizophrenia-linked gene PRODH.					
Publication Author List	Suntsova M, Gogvadze EV, Salozhin S, Gaifullin N, Eroshkin F, Dmitriev SE, Martynova N, Kulikov K, Malakhova G, Tukhbatova G, Bolshakov AP, Ghilarov D, Garazha A, Aliper A, Cantor CR, Solokhin Y, Roumiantsev S, Balaban P, Zhavoronkov A, Buzdin A					
PubMed ID	24218577					
Publication DOI	10.1073/pnas.1318172110					
Comment[SecondaryAccession]	GSE43773					
Comment[GEOReleaseDate]	2013-01-26					
Comment[ArrayExpressSubmissionDate]	2013-01-25					
Comment[GEOLastUpdateDate]	2014-02-19					
Comment[AEExperimentType]	transcription profiling by array					
Comment[AdditionalFile:Data1]	GSE43773_non_normalized.txt					
SDRF File	E-GEOD-43773.sdrf.txt