Comment[ArrayExpressAccession]	E-GEOD-57328
MAGE-TAB Version	1.1						
Public Release Date	2014-05-07
Investigation Title	SDF-1 chemokine signaling modulates the apoptotic responses of clathrin-depleted DT40 cells						
Comment[Submitted Name]	SDF-1 chemokine signaling modulates the apoptotic responses of clathrin-depleted DT40 cells
Experiment Description	The cell line DKO-S is derived form chicken B-Cell DT40 cells where the clathrin heavy-chain has been placed under  the control of a tetracycline-regulatable promoter (Tet-Off). The originally derived cell-line DKO-S underwent apoptosis when clathrin expression was repressed. A cell line, DKO-R, derived from DKO-S cells that was less sensitive to clathrin-depletion. This project explores the differnces in gene expression between DKO-R and DKO-S cells Duplicate samples ofDT40, DKO-S or DKO_R cells either with or without treatment with deoxycyclin are compared as is the expression between DKO-R and DKO-S cell lines						
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	Jackson	Jackson	Talbot				
Person First Name	Antony	A	R				
Person Mid Initials		P	T				
Person Email	apj10@cam.ac.uk						
Person Affiliation	University of Cambridge						
Person Address	Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge, Cambridge, Cambridgeshire, United Kingdom						
Person Roles	submitter						
Protocol Name	P-GSE57328-1	P-GSE57328-5	P-GSE57328-6	P-GSE57328-2	P-GSE57328-3	P-GSE57328-4	P-GSE57328-7
Protocol Description	Captured Images were processed using Bluefuse software. M v A plots [where M = log2 (Cy5/Cy3) and A = 1/2*(log2(Cy5) + log2(Cy3)] of the data for each slide were suitably linear to require only a simple global normalisation of the data. ID_REF =  VALUE = M = log2 (Cy5/Cy3) and A = 1/2*(log2(Cy5) + log2(Cy3)	2 M-5g of total RNA was fluorescently labelled using the Stratagene FairPlayM-oM-^CM-^T III microarray labelling kit according to the manufacturers protocol.	Hybridisation was carried out overnight using the Genomic Solutions GeneTAC automated hybridisation station in a buffer of 50% Ultrahyb containg BSA and sonicated salmon sperm DNA as non specific blocking agents.	N/A	All cell lines were maintained in RPMI 1640 media, 0.2% (wt/vol) Na2HCO3, 1% (wt/vol) Lglutamine with 10% (vol/vol) heat-treated foetal calf serum (FCS)	Total RNA extracted using Trizol following manufacturer's instructions	Scaned on an Axon 2000A scanner
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	CELL LINE						
Experimental Factor Type	cell line						
Comment[SecondaryAccession]	GSE57328						
Comment[GEOReleaseDate]	2014-05-07						
Comment[ArrayExpressSubmissionDate]	2014-05-06						
Comment[GEOLastUpdateDate]	2014-05-08						
Comment[AEExperimentType]	comparative genomic hybridization by array						
SDRF File	E-GEOD-57328.sdrf.txt