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Sample GSM1342229 Query DataSets for GSM1342229
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 28
Sample type genomic
Source name GLIOMA 28
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
GLIOMA 28 Detection Pval

Data table
ID_REF VALUE GLIOMA 28 Detection Pval
cg00050873 0.858522670403363 0.680954137331562
cg00212031 0.325429582210243 0.946869321536988
cg00213748 0.0472570371892336 0.997866454833883
cg00214611 0.0147368421052632 0.993837775219883
cg00455876 0.824772554965883 0.0162240835454216
cg01707559 0.00936159147054999 0
cg02004872 0.580083439143842 1.35577410409482e-08
cg02011394 0.889932947133148 0.990659665585689
cg02050847 0.0201793721973094 0.999510166113976
cg02233190 0.0956403269754768 0.615517827335086
cg02494853 0.0783870359902016 0
cg02839557 0.376070026388621 0.996121451181848
cg02842889 0.850173185773422 0.989753638091807
cg03052502 0.804112969564025 0.999943439075162
cg03155755 0.878640776699029 0.674588370225282
cg03244189 0.992300913686749 1.6980518131593e-06
cg03443143 0.94596471732185 0.916894394022572
cg03683899 0.499694989106754 0.986392262007705
cg03695421 0.511015551366635 0.363873431723545
cg03706273 0.0902492136462618 0

Total number of rows: 485512

Table truncated, full table size 14803 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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