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Sample GSM983146 Query DataSets for GSM983146
Status Public on Aug 10, 2012
Title Tumor_63_HCI
Sample type RNA
Source name Primary tumor 63 generated from EF1α-PyMT10C lentivirus, tubular histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: EF1α-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 2.909048092
A_51_P100034 10.09625156
A_51_P100052 4.524343994
A_51_P100084 7.601602677
A_51_P100099 7.80702841
A_51_P100155 9.840011946
A_51_P100174 8.813358743
A_51_P100218 4.57674576
A_51_P100227 9.786808869
A_51_P100238 4.592508717
A_51_P100246 6.222490398
A_51_P100289 10.07451156
A_51_P100327 4.353081179
A_51_P100347 1.504438065
A_51_P100470 4.863233957
A_51_P100537 5.819167649
A_51_P100565 7.592422035
A_51_P100624 2.321854813
A_51_P100625 5.927244952
A_51_P100768 4.843606981

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983146_Tumor_63_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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