Comment[ArrayExpressAccession]	E-GEOD-57285
MAGE-TAB Version	1.1				
Public Release Date	2014-05-06
Investigation Title	DNA methylation profiling of whole blood DNA samples from BRCA1 wild-types without breast cancer and BRCA1 mutants with and without breast cancer (Prague Set 1)				
Comment[Submitted Name]	DNA methylation profiling of whole blood DNA samples from BRCA1 wild-types without breast cancer and BRCA1 mutants with and without breast cancer (Prague Set 1)
Experiment Description	The Illumina Infinium 27k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 27,000 CpGs in whole blood DNA samples from 84 women (42 BRCA1 wild-type and healthy, 7 BRCA1 mutants and healthy, 35 BRCA1 mutants with breast cancer) whole blood DNA from women, with and without breast cancer, and with or without BRCA1 mutation Bisulphite converted DNA from the whole blood samples were hybridised to the Illumina Infinium 27k Human Methylation Beadchip v1.2 The BRCA1 mutation status represent 0=healthy-brca1wt, 1=healthy-brca1mt, 2=breastcancer-brca1mt.				
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	Teschendorff	Teschendorff	Widschwendter		
Person First Name	Andrew	Andrew	Martin		
Person Mid Initials	E				
Person Email	a.teschendorff@ucl.ac.uk				
Person Affiliation	University College London				
Person Phone	+44 02076790727				
Person Address	UCL Cancer Institute/Institute for Women's Health, University College London, 72 Huntley Street, London, United Kingdom				
Person Roles	submitter				
Protocol Name	P-GSE57285-1	P-GSE57285-3	P-GSE57285-4	P-GSE57285-2	P-GSE57285-5
Protocol Description	GenomeStudio software ID_REF = IlmnID VALUE = M/(U+M+100)	Standard Illumina Protocol for Infinium 27k Chip	bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation27 Beadchip using standard Illumina protocol	DNA was extracted from whole blood at Gen-Probe (www.gen-probe.com) using Qiagen QiAamp Blood Mini Kit (51106)	Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	SUBJECT GROUP	AGE AT DRAW	BRCA1 MUTATION STATUS		
Experimental Factor Type	subject group	age at draw	brca1 mutation status		
Comment[SecondaryAccession]	GSE57285				
Comment[GEOReleaseDate]	2014-05-06				
Comment[ArrayExpressSubmissionDate]	2014-05-05				
Comment[GEOLastUpdateDate]	2014-05-06				
Comment[AEExperimentType]	methylation profiling by array				
SDRF File	E-GEOD-57285.sdrf.txt