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Sample GSM1342196 Query DataSets for GSM1342196
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG31
Sample type genomic
Source name cHGA-HGG31
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-HGG31 Detection Pval

Data table
ID_REF VALUE cHGA-HGG31 Detection Pval
cg00050873 0.867371948003599 0.764257345680488
cg00212031 0.0314531432955142 0.998517798292094
cg00213748 0.0467071688942892 0.923786924238996
cg00214611 0.0133718530747008 0.999960379223361
cg00455876 0.310375511656878 0.0210471320652168
cg01707559 0.0051242633871381 0
cg02004872 0.225477507157705 0
cg02011394 0.953338147969828 0.934866119160792
cg02050847 0.0144737662985838 0.699727809936515
cg02233190 0.0381374722838137 0.230678283099404
cg02494853 0.119251925192519 0
cg02839557 0.127666666666667 0.998069942927929
cg02842889 0.894614274468643 0.995692477739568
cg03052502 0.571219942942535 0.973897511646201
cg03155755 0.834100650896968 0.586579065634516
cg03244189 0.984273020366439 6.77413680705286e-12
cg03443143 0.946042858362503 0.956696239215408
cg03683899 0.0770032301760967 0.89937220014574
cg03695421 0.0389555248912005 0.137502269534559
cg03706273 0.0401308340671783 0

Total number of rows: 485512

Table truncated, full table size 14820 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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