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Sample GSM1342167 Query DataSets for GSM1342167
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG14
Sample type genomic
Source name cHGA-HGG14
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
cHGA-HGG14 Detection Pval

Data table
ID_REF VALUE cHGA-HGG14 Detection Pval
cg00050873 0.899942788125358 0.565252127821554
cg00212031 0.605539076037475 0.929225076195016
cg00213748 0.0382906582485678 0.404341697002936
cg00214611 0.00684150513112885 0.58894433504559
cg00455876 0.749254367277375 0.00228183391771408
cg01707559 0.0105798192771084 0
cg02004872 0.229978694071939 0.0135579702548817
cg02011394 0.968109437707677 0.34221557387435
cg02050847 0.0154954954954955 0.960560346072562
cg02233190 0.0758319694489907 0.0703445388768716
cg02494853 0.0632411067193676 0
cg02839557 0.111362493715435 0.582204210621007
cg02842889 0.889232080093727 0.993990578335143
cg03052502 0.489800995024876 0.578824939374917
cg03155755 0.839046409930879 0.0651042055168911
cg03244189 0.977503362269226 4.21078050205637e-09
cg03443143 0.94475861658432 0.837882940544316
cg03683899 0.319766302003686 0.9024661264985
cg03695421 0.0825181263666705 4.21078050205637e-09
cg03706273 0.0370470768952742 0

Total number of rows: 485512

Table truncated, full table size 14820 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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