GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1342185 Query DataSets for GSM1342185
Status Public on Mar 09, 2014
Title genomic DNA from patient mHGA12
Sample type genomic
Source name mHGA12
Organism Homo sapiens
Characteristics mutation: H3F3A.K27M
tissue: glioblastomas
brain region: Supratentorial Midline (GBM)
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
mHGA12 Detection Pval

Data table
ID_REF VALUE mHGA12 Detection Pval
cg00050873 0.881885466762168 0.00238909027839385
cg00212031 0.267710160572123 0.999505721306957
cg00213748 0.0323990261564392 0.999208075958484
cg00214611 0.00920073043966849 0.997997878192672
cg00455876 0.701771653543307 0.287032244746331
cg01707559 0.00852551762071269 0
cg02004872 0.600630213160334 1.5035261582419e-06
cg02011394 0.966496308915389 0.0480818122936927
cg02050847 0.0225936951377757 0.677198844437815
cg02233190 0.0697288323187604 0.150995012871491
cg02494853 0.0670543721973094 0
cg02839557 0.108753804999539 0.76407024783197
cg02842889 0.934890578922862 0.895624179139296
cg03052502 0.467687742723742 0.218973590304076
cg03155755 0.84465090859407 0.242909599952525
cg03244189 0.984123474261454 5.98532334805668e-10
cg03443143 0.920757258305896 3.10532762870519e-06
cg03683899 0.329346491427532 0.990625848341576
cg03695421 0.0411881884227795 8.44661981813655e-06
cg03706273 0.046578493387004 0

Total number of rows: 485512

Table truncated, full table size 14809 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap