Comment[ArrayExpressAccession]	E-GEOD-17639
Public Release Date	2009-11-30
Investigation Title	The human reticulocyte transcriptome (HG-U133_Plus2.0)							
Comment[Submitted Name]	The human reticulocyte transcriptome (HG-U133_Plus2.0)
Experiment Description	RNA from circulating blood reticulocytes was utilized to provide a robust description of genes transcribed at the final stages of erythroblast maturation. After depletion of leukocytes and platelets, Affymetrix HG-U133Plus 2.0 arrays were hybridized with probe from total RNA isolated from blood sampled from 6 umbilical cords and 6 healthy adult humans. Peripheral blood from 6 normal adults and 6 human umbilical cords were purified to obtain packed red blood cells and their purity was assessed by CELL-DYN4000. The contaminated WBC count was less than 1 out of 1 million cells. Total RNA from purified reticulocytes included in the purified red blood cells was extracted, labeled, and hybridized onto Affymetrix HG-U133Plus 2.0 arrays.							
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Term Source Name	EFO
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Term Source File	http://bar.ebi.ac.uk:8080/trac/browser/branches/curator/ExperimentalFactorOntology/ExFactorInOWL/currentrelease/eforelease/efo.owl							
Person Last Name	Miller	Goh	Miller					
Person First Name	Jeffery	Sung-Ho	Jeffery					
Person Mid Initials	Lynn		L					
Person Email	jm7f@nih.gov							
Person Affiliation	NIH/NIDDK							
Person Phone	301-480-1908							
Person Fax	301-435-5148							
Person Address	Molecular Medicine Branch, NIH/NIDDK, 10 Center Drive, Bethesda, MD, USA							
Person Roles	submitter							
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Protocol Name	P-GSE17639-1	P-GSE17639-6	P-GSE17639-3	P-GSE17639-8	P-GSE17639-7	P-GSE17639-2	P-GSE17639-4	P-GSE17639-5
Protocol Description	ID_REF = <br>VALUE = MAS5.0 signal intensity<br>ABS_CALL = the call in an absolute analysis that indicates if the transcript was present (P), absent (A), or marginal (M)<br>DETECTION P-VALUE = p-value that indicates the significance level of the detection call	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.	NA	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 7G 3000.	Reticulocytes-enriched pools were prepared from blood samples by removing plasma, platelets and nucleated cells using centrifugation and filtration methods.	Trizol extraction of total RNA was performed according to the manufacturer's instructions.	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
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Protocol Type	bioassay_data_transformation	hybridization	grow	feature_extraction	image_aquisition	specified_biomaterial_action	nucleic_acid_extraction	labeling
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Experimental Factor Type	tissue							
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Publication Title	Let-7 microRNAs are developmentally regulated in circulating human erythroid cells.							
Publication Author List	Noh SJ, Miller SH, Lee YT, Goh SH, Marincola FM, Stroncek DF, Reed C, Wang E, Miller JL							
PubMed ID	19939273							
Publication DOI	10.1186/1479-5876-7-98							
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Comment[SecondaryAccession]	GSE17639							
Comment[GEOLastUpdateDate]	2011-03-21
Comment[AEExperimentType]	transcription profiling by array							
Comment[GEOReleaseDate]	2009-12-01
Comment[ArrayExpressSubmissionDate]	2009-08-12
SDRF File	E-GEOD-17639.sdrf.txt