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Sample GSM1342205 Query DataSets for GSM1342205
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG29
Sample type genomic
Source name cHGA-HGG29
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
VALUE Average Beta
cHGA-HGG29 Detection Pval

Data table
ID_REF VALUE cHGA-HGG29 Detection Pval
cg00050873 0.935585743646298 0.936198973730129
cg00212031 0.0239386389173873 0.995195104481347
cg00213748 0.0904982756570341 0.992130619622954
cg00214611 0.0433188368721753 0.933132875031714
cg00455876 0.767071552516076 0.377080911541105
cg01707559 0.0227198252321136 0
cg02004872 0.611478894624962 0.0311069252806067
cg02011394 0.970980461654335 0.985148493217556
cg02050847 0.0387537993920973 0.994752781701887
cg02233190 0.146797153024911 0.342122157796012
cg02494853 0.0897351236334287 0
cg02839557 0.529113410428079 0.944743692825756
cg02842889 0.955273368606702 0.961266726379635
cg03052502 0.704860516857779 0.732466761786763
cg03155755 0.807729602438011 0.52401074297946
cg03244189 0.981124515870543 0.00441442574990847
cg03443143 0.883041722745626 0.638822102881805
cg03683899 0.0559898200327213 0.987509288708111
cg03695421 0.0739649558071019 0.00249970456719051
cg03706273 0.0363336992316136 0

Total number of rows: 485512

Table truncated, full table size 14862 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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