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Sample GSM1342193 Query DataSets for GSM1342193
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG9
Sample type genomic
Source name cHGA-HGG9
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-HGG9 Detection Pval

Data table
ID_REF VALUE cHGA-HGG9 Detection Pval
cg00050873 0.867120371074443 0.556233087503626
cg00212031 0.0189299200627728 0.55193300540221
cg00213748 0.043928955186145 0.94389265669326
cg00214611 0.0151092856095056 0.973593156984142
cg00455876 0.826841574167508 3.51070100435003e-07
cg01707559 0.00728494319254143 0
cg02004872 0.575740060278271 0
cg02011394 0.955600608210846 0.0502213330315414
cg02050847 0.0155277330908582 0.902268648084504
cg02233190 0.0654943934760449 0.0598920666645743
cg02494853 0.0587737017006581 0
cg02839557 0.13244507191388 0.57336234961601
cg02842889 0.922201281568036 0.996276948785056
cg03052502 0.709482147079688 0.856817685552859
cg03155755 0.837485402880498 0.00718759344801079
cg03244189 0.987409314299087 0
cg03443143 0.921458625525947 0.00233826465705322
cg03683899 0.244208554480175 0.997232396495088
cg03695421 0.027997174597059 1.98302707588027e-10
cg03706273 0.0442930153321976 0

Total number of rows: 485512

Table truncated, full table size 14818 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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