Investigation Title	The purpose of the experiment was to study miRNA expression in prostate cancer cell lines and xenografts and to combine it with miRNA gene copy number data that we already had to identify miRNAs that could be overexpressed or underexpressed as a consequence of amplification or deletion of the miRNA gene, respectively.	
Comment[Submitted Name]	MBPCG miRNA expression profiling in prostate cancer	
Experimental Design	is_expressed_design	in_vitro_design	co-expression_design	transcription profiling by array	
Experimental Design Term Source REF	The MGED Ontology		The MGED Ontology	EFO	
Comment[SecondaryAccession]		
Comment[ArrayExpressReleaseDate]	2011-06-30	
Comment[AEMIAMESCORE]	3	
Comment[ArrayExpressAccession]	E-MEXP-2966	
Comment[MAGETAB TimeStamp_Version]	2011-08-18 14:43:53 Last Changed Rev: 14857	
Experimental Factor Name	CELL_LINE	
Experimental Factor Type	cell_line	
Experimental Factor Term Source REF	
Person Last Name	Porkka	
Person First Name	Kati	
Person Mid Initials	P	
Person Email	kati.porkka@uta.fi	
Person Phone	-35518123	
Person Fax	-35518239	
Person Address	IMT, Biokatu 8, Tampere, Finland, FIN-33520, Finland	
Person Affiliation	University of Tampere	
Person Roles	submitter	
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Date of Experiment	
Public Release Date	2011-06-30	
PubMed ID	
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Publication Title	
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Publication Status Term Source REF	
Experiment Description	miRNA expression profiling in prostate cancer cell lines and xenografts	
Protocol Name	P-MTAB-17891	P-AGIL-16	P-AGIL-17	P-AGIL-29	P-MTAB-17892	
Protocol Type	nucleic_acid_extraction	labeling	hybridization	feature_extraction	bioassay_data_transformation	
Protocol Description	RNA was extracted with the mirVana miRNA isolation kit according to the total-RNA isolation protocol. (Parameters: Extracted product = total_RNA, Amplification = none)	Title: Agilent miRNA Microarray System (Labeling). Description: Agilent miRNA Microarray System (Labeling)<br>Version: 1.6<br>Agilent publication number: G4170-90010<br>URL: http://www.chem.agilent.com/Library/usermanuals/Public/G4170-90010_miRNA_v1.6.pdf<br>This document describes Agilent's recommended procedures for the preparation and labeling of complex biological targets and hybridization, washing, scanning, and feature extraction of Agilent oligonucleotide microarrays for microarray-based miRNA systems.	Title: Agilent miRNA Microarray System (Hybridization). Description: Agilent miRNA Microarray System (Hybridization)<br>Version: 1.6<br>Agilent publication number: G4170-90010<br>URL: http://www.chem.agilent.com/Library/usermanuals/Public/G4170-90010_miRNA_v1.6.pdf<br>This document describes Agilent's recommended procedures for the preparation and labeling of complex biological targets and hybridization, washing, scanning, and feature extraction of Agilent oligonucleotide microarrays for microarray-based miRNA systems.	Title: Agilent G2565AA and G2565BA Microarray Scanner and Feature Extraction. Description: Agilent G2565AA and G2565BA Microarray Scanner and Feature Extraction<br>Version: 7.0,10.5<br>Agilent publication number: G2566-90017, G4460-90019<br>URL: http://www.chem.agilent.com/Library/usermanuals/Public/G2566-90017.pdf, http://www.chem.agilent.com/Library/usermanuals/Public/G4460-90019_FE_10.5_User.pdf<br>Scanner manual for software release 7.0. The Feature Extraction Software User Guide shows you how to set up and run Feature Extraction automatically for a batch of image files and how to extract image files in real time.	The miRNA expression values were normalized with the 75th percentile method, meaning that 75% of the values are below the normalising factor.	
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SDRF File	E-MEXP-2966.sdrf.txt	
Term Source Name		The MGED Ontology	ArrayExpress	The MGED Ontology	EFO	
Term Source File		http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/arrayexpress	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/efo/	
Term Source Version