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Sample GSM983154 Query DataSets for GSM983154
Status Public on Aug 10, 2012
Title Tumor_249_HCI
Sample type RNA
 
Source name Primary tumor 249 generated from Muc-PyMT10C lentivirus, adenosquamous histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: Muc-PyMT10C
primary tumor: N/A
histology: Adenosquamous
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 10.5.1.1, 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
E-mail(s) Bryan.Welm@hci.utah.edu
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
ID_REF
VALUE Log 2 transformed normalized intensity data

Data table
ID_REF VALUE
A_51_P100021 3.273634367
A_51_P100034 10.42298846
A_51_P100052 3.003537739
A_51_P100084 6.631608385
A_51_P100099 7.867077573
A_51_P100155 9.668206244
A_51_P100174 7.616794782
A_51_P100218 3.923816936
A_51_P100227 10.30833383
A_51_P100238 4.098828213
A_51_P100246 9.157842377
A_51_P100289 9.48073965
A_51_P100327 5.825523576
A_51_P100347 3.80629049
A_51_P100470 7.268878522
A_51_P100537 5.092728964
A_51_P100565 8.067367497
A_51_P100624 8.330622434
A_51_P100625 6.165022829
A_51_P100768 2.867989226

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.




Supplementary file Size Download File type/resource
GSM983154_Tumor_249_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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