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Sample GSM1342177 Query DataSets for GSM1342177
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG35
Sample type genomic
Source name cHGA-HGG35
Organism Homo sapiens
Characteristics mutation: WT
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
cHGA-HGG35 Detection Pval

Data table
ID_REF VALUE cHGA-HGG35 Detection Pval
cg00050873 0.911060264973982 0.488469482337916
cg00212031 0.0165690135433676 0.939588539428809
cg00213748 0.0337547068316299 0.446346200384662
cg00214611 0.00909012949146728 0.7880731358883
cg00455876 0.469690591454431 0.138116459224291
cg01707559 0.00694787041604999 0
cg02004872 0.0787310814874211 0.00674586740150573
cg02011394 0.971874012430212 0.782446439176483
cg02050847 0.020630970538653 0.958477433369606
cg02233190 0.0835346910597169 0.474985447905487
cg02494853 0.0766904661906762 0
cg02839557 0.311798707922475 0.820003995954354
cg02842889 0.943058342482868 0.999519782955464
cg03052502 0.684692398893426 0.874233601026542
cg03155755 0.832456683168317 0.457794585770408
cg03244189 0.984081261370528 5.03740420310095e-06
cg03443143 0.888980748789418 0.195565850779225
cg03683899 0.283087049106279 0.974115105626127
cg03695421 0.502262238711429 0.00204906941174243
cg03706273 0.0477661334804192 0

Total number of rows: 485512

Table truncated, full table size 14825 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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