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Sample GSM1342241 Query DataSets for GSM1342241
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 40
Sample type genomic
Source name GLIOMA 40
Organism Homo sapiens
Characteristics mutation: IDH1
tissue: glioblastomas
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from LBC samples using Qiagen DNeasy Kit according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450k Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Data processing We removed probes with missing values, binding multiple genomic regions, binding targets with known sequence variants (1000 Genomes Project, SNPs with a minor allele frequency ≥ 2/120), or being located on the X or Y chromosomes. The final set contains 309,015 probes
Submission date Mar 08, 2014
Last update date Jan 05, 2015
Contact name Simon Papillon-Cavanagh
Organization name McGill University
Department Human Genetics
Lab Majewski
Street address 740 Dr Penfield
City Montrea
State/province Quebec
ZIP/Postal code H3A0G1
Country Canada
Platform ID GPL13534
Series (1)
GSE55712 Genome wide methylation profliling of pediatric glioblastomas.

Data table header descriptions
VALUE Average Beta
GLIOMA 40 Detection Pval

Data table
ID_REF VALUE GLIOMA 40 Detection Pval
cg00050873 0.844703726917699 0.999987542443332
cg00212031 0.0655822212039636 0.999949642066898
cg00213748 0.0296291227589982 0.988589148914867
cg00214611 0.0190348973117382 0.992098033531579
cg00455876 0.586614868444287 0.952058489776292
cg01707559 0.0200468736921403 0
cg02004872 0.756022838044841 0
cg02011394 0.952198669792813 0.999737146572116
cg02050847 0.0253060478713685 0.958161847995121
cg02233190 0.076173285198556 0.619667914908386
cg02494853 0.162567706045967 0
cg02839557 0.312317985045258 0.992098033531579
cg02842889 0.910241341482526 0.990331245322445
cg03052502 0.697630688228657 0.999925883306013
cg03155755 0.865519096288327 0.891222082755394
cg03244189 0.958181097856231 1.03221875491499e-11
cg03443143 0.959770560421673 0.998059426214303
cg03683899 0.399618972539745 0.998921958142492
cg03695421 0.0817331774920688 0.517354708592389
cg03706273 0.106553147574819 0

Total number of rows: 485512

Table truncated, full table size 14807 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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