GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1342195 Query DataSets for GSM1342195
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 7
Sample type genomic
Source name GLIOMA 7
Organism Homo sapiens
Characteristics mutation: H3F3A.K27M
tissue: glioblastomas
brain region: Thalamus
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 7 Detection Pval

Data table
ID_REF VALUE GLIOMA 7 Detection Pval
cg00050873 0.817212408444636 0.17960122290033
cg00212031 0.446145891337205 0.82856318285256
cg00213748 0.0371811005605766 0.914665812940865
cg00214611 0.0115859740658329 0.61200584115111
cg00455876 0.752407881947513 0.131970372813397
cg01707559 0.0102820619702654 0
cg02004872 0.632043576258452 0
cg02011394 0.953939622286064 0.825868470565012
cg02050847 0.0124175669987372 0.825256281022047
cg02233190 0.0513757523645744 3.16977647152328e-06
cg02494853 0.0647647951441578 0
cg02839557 0.14801747311828 0.686087424304573
cg02842889 0.913476534807883 0.969339094658107
cg03052502 0.424097917660149 0.936761497119741
cg03155755 0.799827586206897 0.220845445185458
cg03244189 0.989526353729381 0
cg03443143 0.942170683644081 0.700884423039577
cg03683899 0.449026304316233 0.84675504802005
cg03695421 0.312495895987918 6.99500376510898e-08
cg03706273 0.0415062560153994 0

Total number of rows: 485512

Table truncated, full table size 14813 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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