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Sample GSM983162 Query DataSets for GSM983162
Status Public on Aug 10, 2012
Title Tumor_1004_HCI
Sample type RNA
Source name Secondary tumor 1004 regenerated from primary tumor 253 tissue, Muc-PyMT10C lentivirus, lipid rich histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: Muc-PyMT10C
primary tumor: 253
histology: Lipid Rich
number of insertion sites: 4- same sites as tumor 253
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, 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 3.929309533
A_51_P100034 10.87286673
A_51_P100052 3.950267145
A_51_P100084 7.884221241
A_51_P100099 7.245208158
A_51_P100155 10.72340834
A_51_P100174 8.013818025
A_51_P100218 4.445181377
A_51_P100227 9.168531154
A_51_P100238 3.76708661
A_51_P100246 9.272978407
A_51_P100289 9.331361118
A_51_P100327 7.17519554
A_51_P100347 3.202481088
A_51_P100470 6.837357529
A_51_P100537 5.381591764
A_51_P100565 7.253531616
A_51_P100624 7.466703533
A_51_P100625 6.553455065
A_51_P100768 5.758201099

Total number of rows: 13988

Table truncated, full table size 340 Kbytes.

Supplementary file Size Download File type/resource
GSM983162_Tumor_1004_HCI.txt.gz 9.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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