Investigation Title	Genotyping of human cancer cell lines										
Comment[Submitted Name]	SNPs Genotyping for Cancer Cell Line Project										
Experimental Design	disease_state_design	co-expression_design	genotyping by array								
Experimental Design Term Source REF	The MGED Ontology	The MGED Ontology	EFO								
Comment[SecondaryAccession]	woost-00035										
Comment[ArrayExpressReleaseDate]	2008-11-17										
Comment[AEMIAMESCORE]	4										
Comment[ArrayExpressAccession]	E-MTAB-38										
Comment[MAGETAB TimeStamp_Version]	2011-08-22 20:57:03 Last Changed Rev: 14857										
Experimental Factor Name	CELLLINE	BIOSOURCEPROVIDER	CLINICALINFORMATION	ORGANISMPART	DISEASESTATE						
Experimental Factor Type	cell_line	BioSourceProvider	clinical_information	organism_part	disease_state						
Experimental Factor Term Source REF											
Person Last Name	Wooster										
Person First Name	Richard										
Person Mid Initials	F										
Person Email	richard.f.wooster@gsk.com										
Person Phone	610-270-6551										
Person Fax											
Person Address	"709 Swedeland Road, King of Prussia, 19406"										
Person Affiliation											
Person Roles	submitter										
Person Roles Term Source REF											
Quality Control Type											
Quality Control Term Source REF											
Replicate Type											
Replicate Term Source REF											
Normalization Type											
Normalization Term Source REF											
Date of Experiment											
Public Release Date	2008-11-17										
PubMed ID											
Publication DOI											
Publication Author List											
Publication Title	None										
Publication Status											
Publication Status Term Source REF											
Experiment Description	Multiple genome-wide microarray 500K SNP studies performed to measure the genotype profile of various cancer cell lines										
Protocol Name	P-MTAB-1056	P-MTAB-1057	P-MTAB-1058	P-MTAB-1059	P-AFFY-6						
Protocol Type	grow	nucleic_acid_extraction	labeling	hybridization	feature_extraction						
Protocol Description	Cell Lines were plated and digested with restriction enzyme Sty or NSP	"Digested DNA was ligated to an adaptor and amplified by PCR using Platinum Pfx DNA Polymerase, yeilding a product of 250-2000bp"	Genechip DNA Labeling biotin-labeled reagent for end-labeling fragmented PCR amplicons - https://www.affymetrix.com/support/downloads/manuals/500k_assay_manual.pdf	standard Affymetrix hybridization protocol - https://www.affymetrix.com/support/downloads/manuals/500k_assay_manual.pdf	Title: Affymetrix CEL analysis. Description: 						
Protocol Parameters											
Protocol Hardware											
Protocol Software					MicroArraySuite 5.0						
Protocol Contact											
Protocol Term Source REF											
SDRF File	E-MTAB-38.sdrf.txt										
Term Source Name	NCI Thesaurus		efo.obo	NCI_thesaurus	ATCC	mo	EFO	The MGED Ontology	ArrayExpress	The MGED Ontology	EFO
Term Source File	http://nciterms.nci.nih.gov/NCIBrowser/Dictionary.do		/nfs/ma/ma-exp/GEOImportDownload/efo.obo	ncithesaurus.obo.alt	http://www.atcc.org/	http://mged.sourceforge.net/ontologies/MGEDontology.php	http://www.ebi.ac.uk/efo/	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