GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM983148 Query DataSets for GSM983148
Status Public on Aug 10, 2012
Title Tumor_449_HCI
Sample type RNA
Source name Secondary tumor 449 regenerated from primary tumor 43 tissue, EF1α-PyMT10C lentivirus, adenocarcinoma histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: EF1α-PyMT10C
primary tumor: 43
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 3.643449526
A_51_P100034 10.38984642
A_51_P100052 4.39854496
A_51_P100084 6.846676233
A_51_P100099 7.897123811
A_51_P100155 10.78480049
A_51_P100174 8.720270354
A_51_P100218 4.884808288
A_51_P100227 10.07531662
A_51_P100238 3.123200392
A_51_P100246 8.869576071
A_51_P100289 10.12562044
A_51_P100327 7.701015986
A_51_P100347 4.249762302
A_51_P100470 6.526968974
A_51_P100537 5.691217027
A_51_P100565 7.17580874
A_51_P100624 4.816725638
A_51_P100625 6.291191608
A_51_P100768 5.332658273

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983148_Tumor_449_HCI.txt.gz 9.3 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap