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Sample GSM843840 Query DataSets for GSM843840
Status Public on Mar 21, 2012
Title Primary Leukemia 1307 - Day 14
Sample type genomic
Source name Primary Leukemia
Organism Homo sapiens
Characteristics disease state: Primary Cancer
cell type: leukemia cells
treatement: Untreated
time: day 14
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 HumanMethylation450 Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Description Bisulfite treated genomic DNA
Untreated primary leukemia
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 Dec 06, 2011
Last update date Jul 24, 2013
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 GPL13534
Series (1)
GSE20945 Effects of DAC treatment

Data table header descriptions
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000029 0.728996404 0
cg00000108 0.948232718 0
cg00000109 0.950878774 0
cg00000165 0.21414791 0
cg00000236 0.920118343 0
cg00000289 0.793567518 0
cg00000292 0.86982474 0
cg00000321 0.352961409 0
cg00000363 0.646622285 0
cg00000622 0.014219645 0
cg00000658 0.85113453 0
cg00000714 0.41193685 0
cg00000721 0.961196782 0
cg00000734 0.093437815 0
cg00000769 0.090812316 0
cg00000807 0.89577034 0
cg00000884 0.893143261 0
cg00000905 0.221823642 0
cg00000924 0.396624629 0
cg00000948 0.906591718 0

Total number of rows: 485577

Table truncated, full table size 11400 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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