GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1342221 Query DataSets for GSM1342221
Status Public on Mar 09, 2014
Title genomic DNA from patient GLIOMA 20
Sample type genomic
Source name GLIOMA 20
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 20 Detection Pval

Data table
ID_REF VALUE GLIOMA 20 Detection Pval
cg00050873 0.91085991535047 0.972181457917407
cg00212031 0.415139442231076 0.999965469163607
cg00213748 0.0480104470732831 0.998281056953428
cg00214611 0.0198084866691701 0.991677166514067
cg00455876 0.746830901698158 0.294739007904389
cg01707559 0.0168768875466335 0
cg02004872 0.687309172972255 0.310431876238549
cg02011394 0.961779147010686 0.987541328654499
cg02050847 0.0297299754523138 0.980700587937534
cg02233190 0.188087774294671 0.869525570049087
cg02494853 0.106003752345216 0
cg02839557 0.108179104477612 0.722464814185831
cg02842889 0.919229740572346 0.934012954267333
cg03052502 0.37969021231139 0.916622493019633
cg03155755 0.856972230516572 0.654044608660865
cg03244189 0.980754238939778 0.0154495214141134
cg03443143 0.920954297211843 0.954929844410065
cg03683899 0.290262636273538 0.862237393239858
cg03695421 0.0436877258294098 2.35643926985718e-05
cg03706273 0.0677524429967427 0

Total number of rows: 485512

Table truncated, full table size 14851 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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