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Sample GSM983140 Query DataSets for GSM983140
Status Public on Aug 10, 2012
Title Tumor_24_HCI
Sample type RNA
Source name Primary tumor 24 generated from EF1α-PyMT10C lentivirus, adenocarcinoma histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: EF1α-PyMT10C
primary tumor: N/A
histology: Adenocarcinoma
number of insertion sites: 3
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 4.410613605
A_51_P100034 10.18408386
A_51_P100052 4.87122755
A_51_P100084 6.726509491
A_51_P100099 8.232749716
A_51_P100155 11.05511226
A_51_P100174 9.553721449
A_51_P100218 3.827420911
A_51_P100227 10.13648899
A_51_P100238 4.30858484
A_51_P100246 9.405235551
A_51_P100289 10.13616997
A_51_P100327 5.622652145
A_51_P100347 4.678395347
A_51_P100470 6.074496004
A_51_P100537 5.386016583
A_51_P100565 6.802204866
A_51_P100624 2.349495879
A_51_P100625 5.95158321
A_51_P100768 3.827266437

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983140_Tumor_24_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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