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Sample GSM1342234 Query DataSets for GSM1342234
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 33
Sample type genomic
Source name GLIOMA 33
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 33 Detection Pval

Data table
ID_REF VALUE GLIOMA 33 Detection Pval
cg00050873 0.843575164885149 0.93304610627652
cg00212031 0.688662267546491 0.999860877945878
cg00213748 0.0437764656766267 0.995032070329919
cg00214611 0.0256058857472591 0.845953220466672
cg00455876 0.836179395759054 0.238244008707973
cg01707559 0.0242691259380951 0
cg02004872 0.697962906658559 0.000258641279812566
cg02011394 0.964001132548639 0.994100489657901
cg02050847 0.0275032559564851 0.995322122066892
cg02233190 0.102362204724409 0.786262114242717
cg02494853 0.101546359481625 0
cg02839557 0.479863945578231 0.985402871362464
cg02842889 0.904187315952022 0.997087533813978
cg03052502 0.463807203758483 0.998640037283067
cg03155755 0.863616038157699 0.894633983533456
cg03244189 0.962535533964105 0.000359312774262821
cg03443143 0.939915882235129 0.891875948382575
cg03683899 0.254905913978495 0.999900237904915
cg03695421 0.1348133560111 0.650562775579862
cg03706273 0.0813905930470348 0

Total number of rows: 485512

Table truncated, full table size 14818 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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