Comment[ArrayExpressAccession]	E-GEOD-48371
MAGE-TAB Version	1.1					
Public Release Date	2013-09-15
Investigation Title	Transcriptional profiling of breast cancer stem cell xenografts and their metastatic derivatives					
Comment[Submitted Name]	Transcriptional profiling of breast cancer stem cell xenografts and their metastatic derivatives
Experiment Description	Breast cancer stem cell (BCSC) line #1 and #4 were grown in either stem cell medium or medium favoring the differentiation. Cells were genetically labeled with fluorescent protein expression cassettes and xenotransplanted into immunocompromised mice, giving rise to tumors. Tumors were explanted, dissociated and kept in culture so as to isolate growing cells. Cells were then sorted for fluorescent protein expression and RNA was extracted. Breast cancer stem (BCSC) and differentiated (dBCCs) cells, grown in opportune conditions, were transfected with lentiviral vector encoding luciferase/enhanced green fluorescent protein (Luc/EGFP-BCSCs) or luciferase/red fluorescent protein (Luc/RFP-dBCCs) reporter genes and orthotopically injected in defined ratios (1:1) into immunocompromised mice. Primary tumor growth and the onset of distant metastases was then observed in time. Following primary and metastatic lesions resection,  labeled dBCCs, BCSCs and metastatic derivatives, thereafter referred to as fat pad differentiated cells (FPD), fat pad stem cells (FPS) and metastases (Ms) respectively, were consequently isolated from through fluorescent-activated cell sorting and RNA extracted. 14 samples, with at least 2 biological replicates for each category					
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	pagliuca	Pagliuca	Bartucci			
Person First Name	alfredo	Alfredo	Monica			
Person Email	alfredo.pagliuca@iss.it					
Person Affiliation	ISS					
Person Address	EOMM, ISS, viale regina Elena 299, Roma, RM, Italy					
Person Roles	submitter					
Protocol Name	P-GSE48371-1	P-GSE48371-4	P-GSE48371-5	P-GSE48371-2	P-GSE48371-3	P-GSE48371-6
Protocol Description	Array Tools excel add-in was used for data extraction. Data was processed according to the justRMA procedure and normalization was performed using the median array as reference ID_REF =  VALUE = just RMA signal log value estimates from Array Tools 4.3.1	as from Manufacturer's manual	as from Manufacturer's manual	standard	Trizol	as from Manufacturer's manual
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	CONDITION					
Experimental Factor Type	condition					
Comment[SecondaryAccession]	GSE48371					
Comment[GEOReleaseDate]	2013-09-15					
Comment[ArrayExpressSubmissionDate]	2013-06-27					
Comment[GEOLastUpdateDate]	2013-09-17					
Comment[AEExperimentType]	transcription profiling by array					
SDRF File	E-GEOD-48371.sdrf.txt