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Sample GSM1342202 Query DataSets for GSM1342202
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 8
Sample type genomic
Source name GLIOMA 8
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 8 Detection Pval

Data table
ID_REF VALUE GLIOMA 8 Detection Pval
cg00050873 0.901871401151631 0.191630733289845
cg00212031 0.788622827276042 0.821541520621535
cg00213748 0.0685599541021228 0.00891949749865995
cg00214611 0.024225644575186 0.328457367075083
cg00455876 0.557678013973539 5.69897751212523e-09
cg01707559 0.0269100743745774 0
cg02004872 0.807030872297811 1.61840498236199e-06
cg02011394 0.954198183131248 0.118113220411428
cg02050847 0.0172827652424388 0.128779190480784
cg02233190 0.0862099486634803 0.00800043788141458
cg02494853 0.102724238182406 0
cg02839557 0.872273249138921 0.940955406034488
cg02842889 0.766433163803858 0.379370619202145
cg03052502 0.630960096287381 0.806117376833907
cg03155755 0.85582843796447 0.437904408673552
cg03244189 0.968841585685639 9.43105906475727e-05
cg03443143 0.889382457974044 0.0179745911200457
cg03683899 0.637806080878254 0.874979054019212
cg03695421 0.14104892117069 0.00643792702047186
cg03706273 0.0645071790247624 0

Total number of rows: 485512

Table truncated, full table size 14797 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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