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Sample GSM1342176 Query DataSets for GSM1342176
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG32
Sample type genomic
 
Source name cHGA-HGG32
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
ID_REF
VALUE Average Beta
cHGA-HGG32 Detection Pval

Data table
ID_REF VALUE cHGA-HGG32 Detection Pval
cg00050873 0.927731925690455 0
cg00212031 0.355695525580843 0
cg00213748 0.035002890629106 0
cg00214611 0.0108825121819166 0
cg00455876 0.871151796350868 0
cg01707559 0.0108742931709439 0
cg02004872 0.504724118220638 0
cg02011394 0.961773158537065 0
cg02050847 0.0196455392009613 0
cg02233190 0.121770551038844 0
cg02494853 0.0701775649960608 0
cg02839557 0.136390827517448 0
cg02842889 0.947202110688428 0
cg03052502 0.309734513274336 0
cg03155755 0.838706333575205 0
cg03244189 0.984036611293287 0
cg03443143 0.928469330681748 0
cg03683899 0.518984321745058 0
cg03695421 0.0436219762608304 0
cg03706273 0.0305543800253915 0

Total number of rows: 485512

Table truncated, full table size 14822 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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