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Sample GSM1342228 Query DataSets for GSM1342228
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 27
Sample type genomic
Source name GLIOMA 27
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 27 Detection Pval

Data table
ID_REF VALUE GLIOMA 27 Detection Pval
cg00050873 0.825928950592078 0.990417925225069
cg00212031 0.790727119257205 0.998748361115079
cg00213748 0.0580364009228403 0.867783714765843
cg00214611 0.0311842030387526 0.999877186607366
cg00455876 0.855431363362559 0.811373684438969
cg01707559 0.0201616768380356 0
cg02004872 0.655726690097168 2.22044604925031e-16
cg02011394 0.95101294631198 0.594500569331231
cg02050847 0.0385137127690947 0.984741163608689
cg02233190 0.0836346486401509 0.674510418759029
cg02494853 0.0856756194045388 0
cg02839557 0.589441105230107 0.984310720320953
cg02842889 0.847739568434799 0.996761866043316
cg03052502 0.752096796370136 0.999824752827132
cg03155755 0.857038961038961 0.914246372512224
cg03244189 0.947503201024328 2.47932785413241e-11
cg03443143 0.915062868873492 0.995080831669474
cg03683899 0.528885384167038 0.995757793467264
cg03695421 0.18834413830362 0.447647197304966
cg03706273 0.0974745919310132 0

Total number of rows: 485512

Table truncated, full table size 14808 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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