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Sample GSM1513283 Query DataSets for GSM1513283
Status Public on Jan 01, 2016
Title DNA methylation in NT cells
Sample type genomic
 
Source name Breast cancer cell line
Organism Homo sapiens
Characteristics cell line: MCF7
agent: control
Treatment protocol MCF7 cells were then treated with vehicle and PJ34 for 2hours respectively.
Growth protocol Cell cultures were incubated at 37 degree with humidified air and 5% CO2. Cells were harvested after each treatment. Cells were grown ensuring that 95% of the cells were viable. Harvested cells were centrifuged for five minutes at 200 X g.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Qiagen Dneasykit according to manusfacturers instructions.
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
 
Hybridization protocol Bisulfite converted DNA was amplified, fragmented and hybridized to the Illumina Infinium Human Methylation450 Beadchip using the standard Illumina protocol
Scan protocol Arrays were imaged using the HiScan with the standard recommended settings
Description Sample name: MCF7
Data processing GenomeStudio v.2011.1
 
Submission date Sep 25, 2014
Last update date Jan 01, 2016
Contact name Yvonne Nsokika Fondufe-Mittendorf
E-mail(s) y.fondufe-mittendorf@uky.edu
Phone 8593230091
Organization name University of Kentucky
Department Biochemistry
Lab Mittendorf
Street address 741 South Limestone dr.
City Lexington
State/province KY
ZIP/Postal code 40536-0509
Country USA
 
Platform ID GPL13534
Series (1)
GSE61744 Genome-wide profiling of PARP1 reveals an interplay with gene regulatory regions and DNA methylation

Data table header descriptions
ID_REF
VALUE Normalized Average Beta (Background subtracted and control normalized using GenomeStudio v.2011.1)
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000029 0.06571 0.00000
cg00000108 0.92293 0.00000
cg00000109 0.89239 0.00000
cg00000165 0.93167 0.00000
cg00000236 0.89130 0.00000
cg00000289 0.69588 0.00000
cg00000292 0.91734 0.00000
cg00000321 0.79281 0.00000
cg00000363 0.90569 0.00000
cg00000622 0.01694 0.00000
cg00000658 0.80499 0.00000
cg00000714 0.13811 0.00000
cg00000721 0.94565 0.00000
cg00000734 0.08377 0.00000
cg00000769 0.06648 0.00000
cg00000807 0.88523 0.00000
cg00000884 0.81685 0.00000
cg00000905 0.09634 0.00000
cg00000924 0.06064 0.00000
cg00000948 0.84913 0.00000

Total number of rows: 485577

Table truncated, full table size 12812 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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