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Sample GSM983144 Query DataSets for GSM983144
Status Public on Aug 10, 2012
Title Tumor_39_HCI
Sample type RNA
Source name Primary tumor 39 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: Unknown
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 3.100779666
A_51_P100034 9.97495022
A_51_P100052 4.301352288
A_51_P100084 8.454104031
A_51_P100099 7.585567245
A_51_P100155 10.96414376
A_51_P100174 8.571559723
A_51_P100218 4.76492005
A_51_P100227 9.317515725
A_51_P100238 4.612466448
A_51_P100246 8.768301056
A_51_P100289 8.872048601
A_51_P100327 8.18185516
A_51_P100347 3.443447511
A_51_P100470 6.67765614
A_51_P100537 4.749525654
A_51_P100565 6.484102592
A_51_P100624 2.708295862
A_51_P100625 5.135697962
A_51_P100768 4.52554907

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983144_Tumor_39_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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