Comment[ArrayExpressAccession]	E-GEOD-42078
MAGE-TAB Version	1.1							
Public Release Date	2013-02-16
Investigation Title	Expression data of differentiated human erythroid cells with or without Tranylcypromine (TC) treatment							
Comment[Submitted Name]	Expression data of differentiated human erythroid cells with or without Tranylcypromine (TC) treatment
Experiment Description	We found that LSD1 inhibition by a monoamine oxidase inhibitor, tranylcypromine (TC), could enhance fetal gamma globin expression. Global effects of TC on erythroid expession were conducted by HG-U219 array strips. Primary human erythroid cells, which differentiated from CD34+ cells for 8 days,  were harvested before or and after TC treatment (0.5 µM, 1.5 µM or 5 µM)  for the gene expression analysis.							
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	shi	Shi	Cui	Engel	Tanabe			
Person First Name	Lihong	Lihong	Shuaiying	James	Osamu			
Person Mid Initials				D				
Person Email	shilh@umich.edu							
Person Affiliation	University of Michigan							
Person Address	University of Michigan, 3608 BSRB, 109 Zina Pitcher Place, Ann Arbor, USA							
Person Roles	submitter							
Protocol Name	P-GSE42078-1	P-GSE42078-6	P-GSE42078-3	P-GSE42078-8	P-GSE42078-7	P-GSE42078-2	P-GSE42078-4	P-GSE42078-5
Protocol Description	ID_REF =  VALUE = Log2 Transformed RMA	Following fragmentation, 7.5 ug of aRNA were hybridized for 16 hr at 45C on Mouse Genome 430 2.0 Perfect Match Peg Arrays using the Affymetrix Gene Atlas system (software version 1.0.4.267).	From days 0 to 8, the cells were cultured in IMDM basic medium (Biochrom) supplemented with 40 µg of inositol/ml, 10 µg of folic acid/ml, 160 µM monothioglycerol, 120 µg of iron-saturated human transferrin/ ml, 10 µg of insulin/ml, 900 ng of ferrous sulfate/ml, 90 ng of ferric nitrate/ml, 1µM hydrocortisone, and 5 ng of interleukin-3 (IL-3)/ml, and 200 mM L-glutamine (Invitrogen), 1% deion- ized bovine serum albumin (Stemcell Technologies), 100 ng of stem cell factor (Prospec)/ml, and 3 IU of erythropoietin/ml. From day 8 through day 14, the cells were cultured in the same medium without hydrocortisone or IL-3.	Data was analyzed using the limma and affy Bioconductor packages implemented in the R-statistical environment version 2.15.0. RMA was used to normalize the data and fit log2 transformed expression values	Arrays were scanned using the Affymetrix Gene Atlas system.	Tranylcypromine (Tocris Bioscience) dissolved in water at 0.5, 1.5 and 5 µM was added to the culture medium on day 4 through day 14.	Trizol extraction of total RNA was performed according to the manufacturer's instructions.	Biotinylated aRNA were prepared according to the Affymetrix GeneChip 3' IVT Express kit protocol from 250 ng total RNA (Affymetrix GeneChip 3' IVT Express kit Instruction Manual, P/N 702646 Rev. 5).
Protocol Type	bioassay_data_transformation	hybridization	grow	feature_extraction	image_aquisition	specified_biomaterial_action	nucleic_acid_extraction	labeling
Experimental Factor Name	DRUG TREATMENT							
Experimental Factor Type	drug treatment							
Comment[SecondaryAccession]	GSE42078							
Comment[GEOReleaseDate]	2013-02-16							
Comment[ArrayExpressSubmissionDate]	2012-11-06							
Comment[GEOLastUpdateDate]	2013-02-17							
Comment[AEExperimentType]	transcription profiling by array							
SDRF File	E-GEOD-42078.sdrf.txt