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Sample GSM1342210 Query DataSets for GSM1342210
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 11
Sample type genomic
Source name GLIOMA 11
Organism Homo sapiens
Characteristics mutation: H3F3A.K27M
tissue: glioblastomas
brain region: Thalamus
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 11 Detection Pval

Data table
ID_REF VALUE GLIOMA 11 Detection Pval
cg00050873 0.938396118410293 0.999864867350113
cg00212031 0.0437846580406654 0.90578822464456
cg00213748 0.0470969166237398 0.999912234457096
cg00214611 0.0264488525865422 0.998656663679701
cg00455876 0.88339222614841 0.0711856607730189
cg01707559 0.012538913870633 0
cg02004872 0.863283846665189 0.0279986183681943
cg02011394 0.966841513675534 0.90146834777369
cg02050847 0.0453303739115588 0.923306870960636
cg02233190 0.198906644238856 0.491031326207001
cg02494853 0.0631384290243043 0
cg02839557 0.236854515444471 0.947252462278702
cg02842889 0.903688150447325 0.999886639616351
cg03052502 0.236080011942081 0.999819019806063
cg03155755 0.861488904795991 0.960256977728886
cg03244189 0.951367781155015 0.00486121797297756
cg03443143 0.945384464624028 0.684590587797577
cg03683899 0.467484423676012 0.948451294743024
cg03695421 0.0561938958707361 2.99480182078815e-05
cg03706273 0.0522008679479231 0

Total number of rows: 485512

Table truncated, full table size 14888 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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