GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1342219 Query DataSets for GSM1342219
Status Public on Mar 09, 2014
Title genomic DNA from patient mHGA11
Sample type genomic
Source name mHGA11
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
mHGA11 Detection Pval

Data table
ID_REF VALUE mHGA11 Detection Pval
cg00050873 0.899109385704499 0.989204416872045
cg00212031 0.266836508639787 0.918967958117671
cg00213748 0.060479409956976 0.771788631333878
cg00214611 0.0231589903721051 0.994510904291126
cg00455876 0.726122982991714 0.00560047533243957
cg01707559 0.0211362412493269 0
cg02004872 0.529661503155479 0.453854762912277
cg02011394 0.963027035725781 0.996437418547532
cg02050847 0.0307995173683876 0.983798371807415
cg02233190 0.203077952492472 0.977939179783714
cg02494853 0.09381398069611 0
cg02839557 0.0926082464544003 0.995701830704753
cg02842889 0.88636759127136 0.932741729652573
cg03052502 0.462348178137652 0.997242022304492
cg03155755 0.87675215450109 0.610659302566187
cg03244189 0.980352303523035 0.0557624196199771
cg03443143 0.889071680376028 0.97108637813018
cg03683899 0.194278777642899 0.921056671502469
cg03695421 0.581077415504801 0.00236823924742202
cg03706273 0.0498658525302988 0

Total number of rows: 485512

Table truncated, full table size 14865 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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