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Sample GSM618228 Query DataSets for GSM618228
Status Public on Mar 21, 2012
Title Primary Leukemia - Untreated - Patient 2 [CH3'n profiling]
Sample type genomic
Source name Primary leukemia
Organism Homo sapiens
Characteristics general control: Primary Leukemia (Patient 2)
agent: Untreated
Growth protocol Cultured short term in STEMLINE II Medium
Extracted molecule genomic DNA
Extraction protocol Phenol-chloroform extraction
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol Bisulphite converted (EZ DNA methylation kit) 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 PL2
Primary leukemia control
Data processing Raw methylated and unmethylated signals are used to recalculate beta values without background subtraction. Probes with a detection p-value equal to or greater than .05 are set to NA. Data handling and processing done in R.
Submission date Nov 05, 2010
Last update date Mar 21, 2012
Contact name Leander Van Neste
Organization name Ghent University
Department Molecular Biotechnology
Lab Bioinformatics and Computational Genomics
Street address Coupure Links 653
City Ghent
ZIP/Postal code 9000
Country Belgium
Platform ID GPL8490
Series (1)
GSE20945 Effects of DAC treatment

Data table header descriptions
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000292 0.89495935 3.68E-38
cg00002426 0.896133434 3.68E-38
cg00003994 0.117973784 3.68E-38
cg00005847 0.255677656 3.68E-38
cg00006414 0.06552901 3.68E-38
cg00007981 0.029426559 3.68E-38
cg00008493 0.9772203 3.68E-38
cg00008713 0.03333665 3.68E-38
cg00009407 0.021735115 3.68E-38
cg00010193 0.63744909 3.68E-38
cg00011459 0.832219748 3.68E-38
cg00012199 0.023092445 3.68E-38
cg00012386 0.023919346 3.68E-38
cg00012792 0.018878401 3.68E-38
cg00013618 0.897855196 3.68E-38
cg00014085 0.064685067 3.68E-38
cg00014837 0.885405961 3.68E-38
cg00015770 0.374796944 3.68E-38
cg00016968 0.885774283 3.68E-38
cg00019495 0.934496431 3.68E-38

Total number of rows: 27578

Table truncated, full table size 858 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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