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Sample GSM752189 Query DataSets for GSM752189
Status Public on Feb 16, 2012
Title Tumor ID 36
Sample type genomic
Source name glioma
Organism Homo sapiens
Characteristics tissue type: frozen tissue for primary tumor
cell type: glioma
status: CIMP+
Extracted molecule genomic DNA
Extraction protocol The genomic DNA was extracted from snap-frozen sections from the breast cancer patients by using a DNeasy Tissue kit (Qiagen)
Label Biotin
Label protocol Standard Illumina protocol for Human Methylation27 DNA Analysis bead chip
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation27 Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Description mskcc bank number s30
Data processing data was normalized and analyzed using partek software and R packages. Specifically centered logit transformation was used for data normalization.
Submission date Jun 30, 2011
Last update date Mar 05, 2012
Contact name FANG FANG
Phone 646-8882783
Fax 646-8882595
Organization name Memorial Sloan-Kettering Cancer Center
Department The Human Oncology and Pathogenesis Program
Lab Timothy Chan
Street address 1275 York Avenue
City New York
State/province NY
ZIP/Postal code 10065
Country USA
Platform ID GPL13534
Series (2)
GSE30338 Methylation analysis of 81 glioma clinical samples (49 CIMP+ and 32 CIMP-) and 53 cell line samples
GSE30339 IDH1 Mutation is a Master Regulator of Epigenomic Remodeling and is Sufficient to Establish the Glioma Hypermethylator Phenotype

Data table header descriptions
VALUE Average Beta (normalized)
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000029 1.3304 3.68E-38
cg00000108 2.269 3.68E-38
cg00000109 0.8292 3.68E-38
cg00000165 0.288 3.68E-38
cg00000236 1.4426 3.68E-38
cg00000289 -0.1409 3.68E-38
cg00000292 1.4737 3.68E-38
cg00000321 1.0693 3.68E-38
cg00000363 1.1873 3.68E-38
cg00000622 -3.7572 3.68E-38
cg00000658 1.4084 3.68E-38
cg00000714 -1.4451 3.68E-38
cg00000721 1.5947 3.68E-38
cg00000734 -2.1776 3.68E-38
cg00000769 -2.7766 3.68E-38
cg00000807 2.0005 3.68E-38
cg00000884 1.5473 3.68E-38
cg00000905 -2.0731 3.68E-38
cg00000924 0.158 3.68E-38
cg00000948 2.08 3.68E-38

Total number of rows: 485577

Table truncated, full table size 12941 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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