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Sample GSM983166 Query DataSets for GSM983166
Status Public on Aug 10, 2012
Title Tumor_1656_HCI
Sample type RNA
Source name Primary tumor 1656 generated from EF1α-PyMT9C lentivirus, adenosquamous histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: EF1α-PyMT9C
primary tumor: N/A
histology: Adenosquamous
number of insertion sites: Unknown
combat group: 1
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, 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
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
VALUE Log 2 transformed normalized intensity data

Data table
A_51_P100021 4.923003442
A_51_P100034 11.03922488
A_51_P100052 4.73909349
A_51_P100084 6.534026267
A_51_P100099 7.602514747
A_51_P100155 10.45481444
A_51_P100174 7.567411881
A_51_P100218 3.63457458
A_51_P100227 9.175198663
A_51_P100238 3.568504913
A_51_P100246 8.13127956
A_51_P100289 9.837658243
A_51_P100327 7.830147296
A_51_P100347 3.78569199
A_51_P100470 6.258973138
A_51_P100537 5.237276238
A_51_P100565 8.203677842
A_51_P100624 3.410042215
A_51_P100625 5.626974498
A_51_P100768 4.162042522

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983166_Tumor_1656_HCI.txt.gz 9.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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