Comment[ArrayExpressAccession]	E-GEOD-40853
MAGE-TAB Version	1.1				
Public Release Date	2013-07-15
Investigation Title	Meta-analysis of IDH mutant-mediated hypermethylation identifies tissue-specific effectors within a shared pathway in multiple cancers.				
Comment[Submitted Name]	Meta-analysis of IDH mutant-mediated hypermethylation identifies tissue-specific effectors within a shared pathway in multiple cancers.
Experiment Description	Illumina Infinium 450k Human DNA Methylation BeadChip was used to obtain DNA methylation profiles across approximately 450,000 CpGs in 51 central chondrosarcoma. Bisulphite converted DNA from each sample was hybridised to the Illumina Infinium 450k Human Methylation BeadChip.				
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	Guilhamon	Guilhamon			
Person First Name	Paul	Paul			
Person Email	geo@ncbi.nlm.nih.gov				
Person Affiliation	UCL				
Person Address	UCL, 72 Huntley Street, London, United Kingdom				
Person Roles	submitter				
Protocol Name	P-GSE40853-1	P-GSE40853-3	P-GSE40853-4	P-GSE40853-2	P-GSE40853-5
Protocol Description	GenomeStudio software v2011.1. The non_normalized.txt file contains unmethylated (SignalA) and methylated (SignalB) signal intensities. ID_REF =  VALUE = Average Beta Detection Pval = 	Standard Illumina Protocol	bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol	genomic DNA was extracted and purified using QiaAMP DNA Mini Kit according to standard instructions	Arrays were imaged using standard recommended Illumina scanner settings
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	IDH STATUS	TUMOR GRADE	SEX	AGE AT PRESENTATION	
Experimental Factor Type	idh status	tumor grade	sex	age at presentation	
Comment[SecondaryAccession]	GSE40853				
Comment[GEOReleaseDate]	2013-07-15				
Comment[ArrayExpressSubmissionDate]	2012-09-13				
Comment[GEOLastUpdateDate]	2013-07-16				
Comment[AEExperimentType]	methylation profiling by array				
Comment[AdditionalFile:Data1]	GSE40853_non_normalized.txt				
SDRF File	E-GEOD-40853.sdrf.txt