GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1342255 Query DataSets for GSM1342255
Status Public on Mar 09, 2014
Title genomic DNA from patient mHGA34
Sample type genomic
Source name mHGA34
Organism Homo sapiens
Characteristics mutation: HIST1H3C.K27M
tissue: glioblastomas
brain region: Infratentorial Midline (DIPG)
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
Description BIOPSY
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
mHGA34 Detection Pval

Data table
ID_REF VALUE mHGA34 Detection Pval
cg00050873 0.863111726685134 0.48937956207009
cg00212031 0.153671003717472 0.947823059392833
cg00213748 0.0503946997462644 0.17800689745899
cg00214611 0.0166646467094898 0.896207291372569
cg00455876 0.68268418582825 3.58115186394059e-08
cg01707559 0.0152928325350811 0
cg02004872 0.501202633965538 2.2688234612156e-06
cg02011394 0.945123293703214 0.772012158468405
cg02050847 0.0206028233498665 0.81703003956254
cg02233190 0.0861883214824391 0.000590776963162787
cg02494853 0.0522665888021023 0
cg02839557 0.181450101222164 0.415664619368516
cg02842889 0.914090550836325 0.973649755816928
cg03052502 0.435129636392091 0.953263167127428
cg03155755 0.797272448666871 0.391611550446941
cg03244189 0.975617128463476 2.78937073439067e-08
cg03443143 0.951022494887526 0.10062779985426
cg03683899 0.600134748189321 0.979216188618478
cg03695421 0.592909535452323 0.0193894728181885
cg03706273 0.0479273140261215 0

Total number of rows: 485512

Table truncated, full table size 14804 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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