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Sample GSM983165 Query DataSets for GSM983165
Status Public on Aug 10, 2012
Title Tumor_1649_HCI
Sample type RNA
Source name Primary tumor 1649 generated from EF1α-PyMT9C lentivirus, tubular histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: EF1α-PyMT9C
primary tumor: N/A
histology: Tubular
number of insertion sites: 2
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 4.771295622
A_51_P100034 10.34664784
A_51_P100052 4.319484165
A_51_P100084 6.684805283
A_51_P100099 7.438677709
A_51_P100155 10.29791938
A_51_P100174 7.009426565
A_51_P100218 5.137615298
A_51_P100227 9.014384396
A_51_P100238 4.334526604
A_51_P100246 8.234199481
A_51_P100289 9.843801246
A_51_P100327 6.663267458
A_51_P100347 2.894454718
A_51_P100470 6.430350065
A_51_P100537 4.847296738
A_51_P100565 7.54417492
A_51_P100624 2.863934582
A_51_P100625 5.430424711
A_51_P100768 4.747474614

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983165_Tumor_1649_HCI.txt.gz 9.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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