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Sample GSM983169 Query DataSets for GSM983169
Status Public on Aug 10, 2012
Title Embryonic_HCI
Sample type RNA
Source name Embryonic tissue sample
Organism Mus musculus
Characteristics tissue type: embryonic tissue
lentivirus: N/A
primary tumor: N/A
histology: N/A
number of insertion sites: N/A
combat group: 5
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 1.864677438
A_51_P100034 10.03566504
A_51_P100052 4.528457237
A_51_P100084 7.61309887
A_51_P100099 6.172219898
A_51_P100155 10.16617827
A_51_P100174 8.311720283
A_51_P100218 3.252248956
A_51_P100227 8.97219647
A_51_P100238 3.437513536
A_51_P100246 8.606443635
A_51_P100289 9.851019536
A_51_P100327 4.194906254
A_51_P100347 2.216801507
A_51_P100470 6.175252595
A_51_P100537 4.318529727
A_51_P100565 7.023174692
A_51_P100624 5.482000937
A_51_P100625 7.131299849
A_51_P100768 2.77055276

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983169_Embryonic_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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