Comment[GEAAccession]	E-GEAD-940
MAGE-TAB Version	1.1
Investigation Title	microRNA expression profiling in renal cell carcinoma. (CBX62)
Experiment Description	To investigate the expression profile of miRNAs in Renal cell carcinoma, and to identify candidate miRNAs showing aberrant regulation of expression.
Experimental Design	disease state design
Experimental Factor Name	sample_name
Experimental Factor Type	sample_name
Person Last Name	Nakada	Moriyama
Person First Name	Chisato	Masatsugu
Person Affiliation	Department of Molecular Pathology,Faculty of Medicine,Oita University	
Person Roles	submitter	
Public Release Date	2025-01-27
PubMed ID	18925646
Protocol Name	P-GEAD-3810	P-GEAD-3811	P-GEAD-3812	P-GEAD-3813	P-GEAD-3814	P-GEAD-3815	P-GEAD-3816	P-GEAD-3817
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid labeling protocol	nucleic acid hybridization to array protocol	array scanning and feature extraction protocol	normalization data transformation protocol	growth protocol	treatment protocol
Protocol Description	Total RNA was extracted with a miRNeasy mini kit (Qiagen, Valencia, CA, USA) according to the manufacturer's instructions.	The intensities of fluorescence were calculated by Feature extraction software ver.9.5 (Agilent Technologies). Calculating protocol, miRNA-v1_95_May07 (Agilent Technologies).	100 ng of total RNA was labeled with Cy3 and hybridized with a miRNA labeling and hybridization kit (Agilent Technologies, Santa Clara, CA, USA) according to the manufacturer's instructions.	Using a miRNA labeling and hybridization kit (Agilent Technologies), the labeled RNA was hybridized to miRNA 8x15K array (Agilent miRNA array G4470A) at 55degree C for 20 hours.	The arrays were scanned with a laser confocal scanner (G2565bA, Agilent Technologies) and Agilent Scan Control software ver.7.0., Human mature miRNAs (470 miRNAs) and virus miRNAs (64 miRNAs). Sanger miRbase 9.1.	After transformation, specific samples were normalized to one another: 26 samples were normalized against the median of the 6 normal samples. Each measurement for each miRNA in those specific samples was divided by the median of that miRNA's measurements in the corresponding control samples., Values in raw data below 0.01 were set to 0.01.	none	none
SDRF File	E-GEAD-940.sdrf.txt
Comment[Number of channel]	single-channel
Comment[Array Design REF]	A-GEAD-145
Comment[AEExperimentType]	transcription profiling by array
Comment[SecondaryAccession]	CBX62
Comment[BioProject]	PRJDB20039
Comment[CIBEX Accept Date]	2010-01-01
Comment[CIBEX Public Release Date]	2008-08-20
Comment[Last Update Date]	2025-01-31