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Sample GSM1342252 Query DataSets for GSM1342252
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 50
Sample type genomic
Source name GLIOMA 50
Organism Homo sapiens
Characteristics mutation: H3F3A.K27M
tissue: glioblastomas
brain region: Infratentorial Midline (DIPG)
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 50 Detection Pval

Data table
ID_REF VALUE GLIOMA 50 Detection Pval
cg00050873 0.904264951155587 0.745213293270249
cg00212031 0.548522652659225 0.988420018647807
cg00213748 0.0514030777188672 0.902601996842108
cg00214611 0.0162258279617693 0.972950674548655
cg00455876 0.774307412557493 0.362331366501694
cg01707559 0.0133011793963601 1.11022302462516e-16
cg02004872 0.525328547443988 0.00183825050591402
cg02011394 0.963264309832798 0.883291004522427
cg02050847 0.0265706982375891 0.998224636055595
cg02233190 0.116798257555132 0.996733147154128
cg02494853 0.0759304536810649 0
cg02839557 0.0982462583784776 0.999176982345182
cg02842889 0.912449741007715 0.725192979436096
cg03052502 0.368836108920536 0.998306758096719
cg03155755 0.855837454310901 0.0247930339710221
cg03244189 0.969335096174351 0.000239600097063808
cg03443143 0.913293441276546 0.994812367172151
cg03683899 0.206201706984496 0.672213733382218
cg03695421 0.0299846232701179 1.05160101159241e-05
cg03706273 0.0422173998816335 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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