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Sample GSM1342172 Query DataSets for GSM1342172
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGA27
Sample type genomic
Source name cHGA-HGA27
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-HGA27 Detection Pval

Data table
ID_REF VALUE cHGA-HGA27 Detection Pval
cg00050873 0.893393048537743 0.864553189267478
cg00212031 0.0346003630562737 0.646883956626928
cg00213748 0.034159709387547 0.997925371179718
cg00214611 0.0490064446831364 0.934182445885964
cg00455876 0.5024 5.43431966093522e-12
cg01707559 0.00976332484899138 0
cg02004872 0.458961531826807 0.0121891934830284
cg02011394 0.972255912674348 0.523728598982311
cg02050847 0.0222187573088017 0.865307213240793
cg02233190 0.131376659678546 0.660242699281578
cg02494853 0.0541211893112533 0
cg02839557 0.197679868760253 0.737225405802772
cg02842889 0.704283216783217 0.980166351167529
cg03052502 0.339300422821372 0.6759032193058
cg03155755 0.807632066068632 0.306474634526189
cg03244189 0.984706035267103 0.000114618403217581
cg03443143 0.92552026286966 0.816638144348353
cg03683899 0.787032626815909 0.795669189572943
cg03695421 0.475416145482536 0.239405783920318
cg03706273 0.0286471607707208 0

Total number of rows: 485512

Table truncated, full table size 14819 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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