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Sample GSM1347960 Query DataSets for GSM1347960
Status Public on Sep 01, 2014
Title PyMT/S14-null Tumor B
Sample type RNA
 
Source name mouse mammary tumor
Organism Mus musculus
Characteristics strain: FVB/N
genotype: PyMT/S14-null
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Trizol (Invitrogen) and the RNEasy mini kit (Qiagen) with on-column DNAse digestion was used following Trizol extraction. 100ng total RNA per sample was used for array analysis.
Label biotin
Label protocol Fragmented ssDNA was labeled with the Affymetrix WT Terminal Labeling and Hybridization kit according to the instructions, using Affymetrix proprietary biotinylated labeling reagent.
 
Hybridization protocol Samples were hybridized using the Gene Atlas Microarray System (Affymetrix) hybridization chamber; 20 hours at 48 C
Scan protocol Samples were scanned and imaged using the Gene Atlas Microarray System Fludics and Imaging equipment (Affymetrix)
Data processing CEL files were processed in Partek Genomic Suite using RMA Quantile normalization; intensity values were scaled by log2 transformation
 
Submission date Mar 13, 2014
Last update date Sep 01, 2014
Contact name Elizabeth A Wellberg
E-mail(s) elizabeth-wellberg@ouhsc.edu
Organization name University of Oklahoma HSC
Department Pathology
Street address 975 NE 10th St, BRC 309
City Oklahoma City
State/province Oklahoma
ZIP/Postal code 73104
Country USA
 
Platform ID GPL11533
Series (1)
GSE55886 Effect of Spot14 Loss on Gene Expression Profile of MMTV-PyMT Mouse Tumors

Data table header descriptions
ID_REF
VALUE RMA-normalized, log2 transformed intensity values

Data table
ID_REF VALUE
10338001 10.4478
10338002 4.77968
10338003 8.83743
10338004 8.09026
10338005 2.58859
10338006 2.75609
10338007 2.94715
10338008 3.28732
10338009 6.07572
10338010 2.607
10338011 4.30449
10338012 2.66355
10338013 2.48115
10338014 2.53088
10338015 2.48507
10338016 5.63102
10338017 11.2908
10338018 5.10215
10338019 3.93226
10338020 6.00553

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM1347960_PyMT_S14null_B.ga.cel.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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