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Sample GSM983168 Query DataSets for GSM983168
Status Public on Aug 10, 2012
Title Tumor_MMTV_PyMT_82_HCI
Sample type RNA
 
Source name Primary tumor MMTV-PyMT 82 generated from MMTV-PyMT transgenic mouse, adenosquamous histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: N/A
primary tumor: N/A
histology: Adenocarcinoma
number of insertion sites: N/A
combat group: 4
Treatment protocol No treatments
Growth protocol Mammary epithelial cells were infected with specified lentivirus, then transplanted into cleared fat pads of recipient mice. Tumors were harvested at 2 cm and a portion was flash frozen.
Extracted molecule total RNA
Extraction protocol Qiagen Rneasy kit
Label Cy3
Label protocol Agilent One-Color Quick Amp Labeling Protocol
 
Hybridization protocol Agilent One-color Gene Expression Hybridization and Wash Protocol
Scan protocol Microarrays were scanned on an Agilent Technologies G2505C scanner at 5 micron resolution
Data processing Array images were processed in Agilent Feature Extraction software version 10.5.1.1, which produces spatially detrended intensity data
Array data was filtered to remove control features and any non-uniform features or population outlier features. Remaining features were averaged to yield a single value for each unique probe. Finally data were log2 transformed, quantile normalized, and adjusted for batch effects using ComBat.
 
Submission date Aug 09, 2012
Last update date Feb 07, 2013
Contact name Bryan Welm
E-mail(s) Bryan.Welm@hci.utah.edu
Phone 801-587-4633
Organization name University of Utah, Huntsman Cancer Institute
Department Oncological Science
Lab Bryan Welm Lab
Street address 2000 Circle of Hope Drive
City Salt Lake City
State/province UT
ZIP/Postal code 84112
Country USA
 
Platform ID GPL7202
Series (1)
GSE40001 Targeting PyMT oncogene to diverse mammary cell populations enhances tumor heterogeneity and generates rare breast cancer subtypes

Data table header descriptions
ID_REF
VALUE Log 2 transformed normalized intensity data

Data table
ID_REF VALUE
A_51_P100021 3.761124783
A_51_P100034 9.47409016
A_51_P100052 3.349487502
A_51_P100084 6.822212315
A_51_P100099 7.735237145
A_51_P100155 10.87877767
A_51_P100174 8.292718521
A_51_P100218 3.768671887
A_51_P100227 8.483222105
A_51_P100238 3.326546571
A_51_P100246 9.036475562
A_51_P100289 9.802231979
A_51_P100327 6.543107656
A_51_P100347 3.793967895
A_51_P100470 5.943607378
A_51_P100537 5.338552751
A_51_P100565 6.841705387
A_51_P100624 3.361250433
A_51_P100625 5.936032146
A_51_P100768 4.838941296

Total number of rows: 13988

Table truncated, full table size 340 Kbytes.




Supplementary file Size Download File type/resource
GSM983168_Tumor_MMTV_PyMT_82_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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