GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM983149 Query DataSets for GSM983149
Status Public on Aug 10, 2012
Title Tumor_1055_HCI
Sample type RNA
Source name Secondary tumor 1055 regenerated from primary tumor 25 tissue, EF1α-PyMT10C lentivirus, adenocarcinoma histology
Organism Mus musculus
Characteristics tissue type: mouse mammary tumor
lentivirus: EF1α-PyMT10C
primary tumor: 25
histology: Adenocarcinoma
number of insertion sites: 1- same site as tumor 25
combat group: 3
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 4.873969443
A_51_P100034 10.4287835
A_51_P100052 3.017596138
A_51_P100084 6.266245136
A_51_P100099 8.240117898
A_51_P100155 10.40763694
A_51_P100174 9.188879192
A_51_P100218 5.668977045
A_51_P100227 9.435083525
A_51_P100238 3.266019468
A_51_P100246 9.170469713
A_51_P100289 10.13242509
A_51_P100327 6.265141206
A_51_P100347 3.592124254
A_51_P100470 6.67260517
A_51_P100537 4.604540221
A_51_P100565 8.297553021
A_51_P100624 4.970117901
A_51_P100625 6.20727861
A_51_P100768 4.248703157

Total number of rows: 13988

Table truncated, full table size 339 Kbytes.

Supplementary file Size Download File type/resource
GSM983149_Tumor_1055_HCI.txt.gz 9.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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