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Sample GSM618236 Query DataSets for GSM618236
Status Public on Mar 21, 2012
Title Kasumi-1 leukemia cell line - 10nM DAC treated - day 28 [CH3'n profiling]
Sample type genomic
 
Source name Kasumi-1 leukemia cell line, DAC treated, day 28
Organism Homo sapiens
Characteristics cell line: Kasumi-1 leukemia cell line
agent: DAC
time point: day 28
Treatment protocol 10nM DAC for 72h, renewing the medium every 24h
Growth protocol Obtained from ATCC and cultured according to instructions
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 kasumid28DAC
DAC treated cell line
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
ID_REF
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000292 0.599606815 5.67E-11
cg00002426 0.51810585 0.01044153
cg00003994 0.684385382 0.000250107
cg00005847 0.737809548 3.68E-38
cg00006414 0.128287708 3.68E-38
cg00007981 0.051561912 3.68E-38
cg00008493 0.941594871 3.68E-38
cg00008713 0.034826365 3.68E-38
cg00009407 0.036258241 3.68E-38
cg00010193 0.571196367 3.68E-38
cg00011459 0.941839
cg00012199 0.056110932 3.68E-38
cg00012386 0.015689613 3.68E-38
cg00012792 0.015451856 3.68E-38
cg00013618 0.757579332 3.68E-38
cg00014085 0.059471803 3.68E-38
cg00014837 0.9939731
cg00015770 0.901199683 3.68E-38
cg00016968 0.66047837 3.68E-38
cg00019495 0.814616158 3.68E-38

Total number of rows: 27578

Table truncated, full table size 834 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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