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Sample GSM983160 Query DataSets for GSM983160
Status Public on Aug 10, 2012
Title Tumor_1002_HCI
Sample type RNA
Source name Secondary tumor 1002 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 3.722639804
A_51_P100034 11.19943976
A_51_P100052 2.2023837
A_51_P100084 6.923249297
A_51_P100099 7.166013278
A_51_P100155 10.8846957
A_51_P100174 7.930456837
A_51_P100218 4.721457976
A_51_P100227 9.648480809
A_51_P100238 5.006796271
A_51_P100246 8.770493706
A_51_P100289 9.743427043
A_51_P100327 8.307155921
A_51_P100347 3.267199105
A_51_P100470 7.212023774
A_51_P100537 4.123695326
A_51_P100565 7.187124898
A_51_P100624 6.106573083
A_51_P100625 6.188942066
A_51_P100768 4.684076354

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983160_Tumor_1002_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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