Comment[ArrayExpressAccession]	E-GEOD-46012
MAGE-TAB Version	1.1						
Public Release Date	2013-04-13
Investigation Title	Plasma miRNA Expression Profiling Using Human TaqMan Low Density Array Cards						
Comment[Submitted Name]	Plasma miRNA Expression Profiling Using Human TaqMan Low Density Array Cards
Experiment Description	Our study was designed to identify plasma miRNAs specific for rheumatoid arthritis (RA) by a comprehensive array approach. We performed a array-based miRNA analysis on plasma samples from three RA patients and three healthy controls (HCs). TaqMan Low-Density Array (TLDA) using human miRNA version 3.0A and version 2.0B cards (Applied Biosystems) were applied to examine the global change of miRNA expression levels in plasma from patients with RA and healthy controls. A total of 756 mature miRNA updated in the Sanger miRBase v.15.0 were quantified according to the manufacturer's instructions as previously described. Normalization was carried out with the average Ct value of all miRNAs. Relative quantification of miRNA expression was calculated with the 2−ΔΔCt Ct method. The data was presented as log10 of the relative quantity of each miRNA.						
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	Murata	Murata	Yoshitomi				
Person First Name	Koichi	K	H				
Person Email	kchmrt@gmail.com						
Person Affiliation	Kyoto University						
Person Address	Orthopaedics, Kyoto University, 54, Kawahara-cho, Shogoin, Sakyo-ku, Kyoto, Kyoto, Japan						
Person Roles	submitter						
Protocol Name	P-GSE46012-1	P-GSE46012-5	P-GSE46012-6	P-GSE46012-2	P-GSE46012-3	P-GSE46012-4	P-GSE46012-7
Protocol Description	The SDS2.2.2 automatically caluculated the uploaded raw threshold cycle data. Normalization was carried out with the average Ct value of all miRNAs. Relative quantification of miRNA expression was calculated with the 2−ΔΔCt Ct method. The data was presented as log10 of the relative quantity of each miRNA. Fold Change worksheet reports test/control (i.e., RA/HC) ratios. ID_REF =  VALUE = normalized data	see manufacturer's website: http://www.appliedbiosystems.com/	n/a	n/a	n/a	RT2 qPCR-Grade miRNA isolation kit (SABiosciences, Frederick, MD) after twice extration using with Sepasol-RNA II (Nacalai Tesque, Kyoto, Japan), a phenol-based reagent for liquid sample.	n/a
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	DIAGNOSIS	AGE YRS	SEX				
Experimental Factor Type	diagnosis	age yrs	sex				
Comment[SecondaryAccession]	GSE46012						
Comment[GEOReleaseDate]	2013-04-13						
Comment[ArrayExpressSubmissionDate]	2013-04-12						
Comment[GEOLastUpdateDate]	2013-04-13						
Comment[AEExperimentType]	other						
Comment[AdditionalFile:Data1]	GSE46012_fold_change.txt						
Comment[AdditionalFile:Data2]	GSE46012_non-normalized.txt						
SDRF File	E-GEOD-46012.sdrf.txt