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Sample GSM983153 Query DataSets for GSM983153
Status Public on Aug 10, 2012
Title Tumor_248_HCI
Sample type RNA
Source name Primary tumor 248 generated from Muc-PyMT10C lentivirus, tubular histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: Muc-PyMT10C
primary tumor: N/A
histology: Tubular
number of insertion sites: Unknown
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 4.830533441
A_51_P100034 9.572188115
A_51_P100052 4.845756589
A_51_P100084 7.912856502
A_51_P100099 7.168788185
A_51_P100155 10.02835343
A_51_P100174 7.829546868
A_51_P100218 3.838562268
A_51_P100227 8.547273103
A_51_P100238 4.561089445
A_51_P100246 7.875035508
A_51_P100289 11.27755815
A_51_P100327 6.896427494
A_51_P100347 1.009670825
A_51_P100470 6.440109705
A_51_P100537 4.453955335
A_51_P100565 6.757767825
A_51_P100624 2.23361367
A_51_P100625 5.500521656
A_51_P100768 3.608657013

Total number of rows: 13988

Table truncated, full table size 340 Kbytes.

Supplementary file Size Download File type/resource
GSM983153_Tumor_248_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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