GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1342199 Query DataSets for GSM1342199
Status Public on Mar 09, 2014
Title genomic DNA from patient cHGA-HGG21
Sample type genomic
Source name cHGA-HGG21
Organism Homo sapiens
Characteristics mutation: WT
tissue: glioblastomas
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
cHGA-HGG21 Detection Pval

Data table
ID_REF VALUE cHGA-HGG21 Detection Pval
cg00050873 0.910316925151719 0.98894435865314
cg00212031 0.0161457255226661 0.924684707598383
cg00213748 0.0552244128585257 0.813613558884542
cg00214611 0.0212800608001737 0.220398936336584
cg00455876 0.129227823867262 0.00164714854659376
cg01707559 0.0106534090909091 0
cg02004872 0.297629456912465 0.000107893140126825
cg02011394 0.971432861593904 0.0232210094023252
cg02050847 0.0262544557170277 0.578625975193868
cg02233190 0.0765220316178944 0.000751576392268194
cg02494853 0.0647101713452424 0
cg02839557 0.621780317857982 0.853573704700898
cg02842889 0.9394944053046 0.894312175828104
cg03052502 0.707146947061579 0.734445119622582
cg03155755 0.876574065173508 0.667710969305749
cg03244189 0.982818113905589 1.55014148066623e-05
cg03443143 0.936194713425805 0.436206969309764
cg03683899 0.202668987525384 0.605578178621598
cg03695421 0.0785504538174052 0.0053988538114913
cg03706273 0.0416748382035693 0

Total number of rows: 485512

Table truncated, full table size 14834 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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