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Sample GSM246255 Query DataSets for GSM246255
Status Public on Dec 13, 2007
Title Pol_EtOH_Rep1
Sample type genomic
 
Channel 1
Source name MCF7 cells, treated for 45 minutes with EtOH or 17beta-estradiol (E2)
Organism Homo sapiens
Characteristics MCF-7 breast cancer cells
Extracted molecule genomic DNA
Extraction protocol DNA immunoprecipitated (IP DNA) with specific antibodies
Label Cy5
Label protocol Random priming labeling
 
Channel 2
Source name MCF7 cells, treated for 45 minutes with EtOH or 17beta-estradiol (E2)
Organism Homo sapiens
Characteristics MCF-7 breast cancer cells
Extracted molecule genomic DNA
Extraction protocol Input DNA
Label Cy3
Label protocol Random priming labeling
 
 
Hybridization protocol Input and IP DNA co-hybridized to the genomic array described above for 18 hours at 42°C using a TECAN HS400 hybridization machine.
Scan protocol GenePix 4000B scanner (Axon)
Description NA
Data processing After filtering out the spots flagged for bad quality, the signal ratio of IP-DNA over Input-DNA was log2 transformed and normalized based on a set of control genes, as described in the array design and in the supplemental materials.
The "Upper" and "Lower" .gpr files (linked below as Supplementary files) represent the two replicate regions on the same microarray slide. The exact details of the microarray design have been published and can be found here: http://mcb.asm.org/cgi/content/full/27/14/5090?view=long&pmid=17515612
 
Submission date Dec 03, 2007
Last update date Aug 14, 2011
Contact name W. Lee Kraus
E-mail(s) lee.kraus@utsouthwestern.edu
Organization name UT Southwestern Medical Center
Street address 5323 Harry Hines Blvd.
City Dallas
State/province TX
ZIP/Postal code 75390-8511
Country USA
 
Platform ID GPL6229
Series (1)
GSE9253 Genomic analyses of TF binding, histone acetylation and gene expression reveal classes of E2-regulated promoters

Data table header descriptions
ID_REF
VALUE Log2(IP/Input)

Data table
ID_REF VALUE
A1-1 -0.083366196
A1-10 -0.893580757
A1-11 -1.097190339
A1-12 -0.007209697
A1-13 0.134837236
A1-14 -0.844596598
A1-16 -1.248659389
A1-17 -0.918294008
A1-18 -1.565493805
A1-19 -1.551915193
A1-2 -0.890459293
A1-3 0.056998775
A1-4 -0.575598488
A1-5 -1.565183389
A1-7 -1.127128191
A1-8 0.399696538
A1-9 -1.253075268
A2-1 -0.898565919
A2-2 -1.291787077
A2-3 1.121477642

Total number of rows: 852

Table truncated, full table size 15 Kbytes.




Supplementary file Size Download File type/resource
GSM246255.gpr.gz 176.2 Kb (ftp)(http) GPR
GSM246255_1.gpr.gz 175.9 Kb (ftp)(http) GPR
Processed data included within Sample table

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