Comment[ArrayExpressAccession]	E-GEOD-56945
MAGE-TAB Version	1.1						
Public Release Date	2014-07-24
Investigation Title	Regulatory consequences of TARBP2 knock-down in293T cell-line						
Comment[Submitted Name]	Regulatory consequences of TARBP2 knock-down in293T cell-line
Experiment Description	siRNA-mediated knock-down followed by transcriptomic profiling revealed that silencing of TARBP2 resulted in a significant up-regulation of sRSE-carrying transcripts. Two independent siRNAs were used to knock down TARBP2 in metastatic 293T cells. The cells were then subjected to transcripome profiling in comparison to mock-transfected cells.						
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	Goodarzi	Goodarzi	Zhang	Buss	Fish	Tavazoie	Tavazoie
Person First Name	Hani	H	S	C	L	S	S
Person Mid Initials				G			F
Person Email	geo@ncbi.nlm.nih.gov						
Person Affiliation	Columbia University						
Person Address	Columbia University, 1150 St. Nicholas Ave. , New York, NY, USA						
Person Roles	submitter						
Protocol Name	P-GSE56945-1	P-GSE56945-5	P-GSE56945-6	P-GSE56945-2	P-GSE56945-3	P-GSE56945-4	P-GSE56945-7
Protocol Description	Data were quantile-normalized and processed using the Lumi package. Non-normalized values indicate the average probe hybridization signal. Normalized values are quantile-normalized. Final processed values are logFC of siTARBP2 relative to siControl. ID_REF =  VALUE = quantile-normalized signal Detection p-value = 	Samples were biotin-labeled using the TargetAmp-Nano Labeling Kit for Ilumina Expression BeadChip	Per manufacturer's instruction	Cells were transfected with siTARBP2 and siControl using Lipofectamin 2000 per manufacturer guidelines.	Cells were grown in DMEM-based media supplemented with 10% FBS, 1% L-glutamine, 1% Sodium Pyruvate, and 1% Pen/Strep	48hr post-transfection, total RNA was extracted and on-column Dnase treated using Norgen Biotek total RNA extraction kit (per manufacturer instructions).	Per manufacturer's instruction
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	TRANFECTION						
Experimental Factor Type	tranfection						
Publication Title	Metastasis-suppressor transcript destabilization through TARBP2 binding of mRNA hairpins.						
Publication Author List	Goodarzi H, Zhang S, Buss CG, Fish L, Tavazoie S, Tavazoie SF						
PubMed ID	25043050						
Publication DOI	10.1038/nature13466						
Comment[SecondaryAccession]	GSE56945						
Comment[GEOReleaseDate]	2014-07-24						
Comment[ArrayExpressSubmissionDate]	2014-04-21						
Comment[GEOLastUpdateDate]	2014-07-29						
Comment[AEExperimentType]	transcription profiling by array						
Comment[AdditionalFile:Data1]	GSE56945_final_processed_matrix.txt						
Comment[AdditionalFile:Data2]	GSE56945_non-normalized_data.txt						
SDRF File	E-GEOD-56945.sdrf.txt