|
| Status |
Public on Jun 26, 2019 |
| Title |
FVB_MMTV_Wnt1_124607_aCGH_Perou |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
FVB WT DNA
|
| Organism |
Mus musculus |
| Characteristics |
tissue: FVB DNA Reference
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from 11 Wnt1-EarlyEx and 10 Wnt1-LateEx tumors using a DNeasy blood and tissue kit (Qiagen #69504), labeled with a Sure Tag DNA kit (Agilent #5190-4240), and hybridized to 244K CGH microarrays (Agilent #G4415A) as previously described.
|
| Label |
Cy3
|
| Label protocol |
described in Herschkowitz et al., 2012, PNAS, 109:2778-2783
|
| |
|
| Channel 2 |
| Source name |
Tumor DNA 124607
|
| Organism |
Mus musculus |
| Characteristics |
tissue: FVB/n MMTV-Wnt1 mammary tumor
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from 11 Wnt1-EarlyEx and 10 Wnt1-LateEx tumors using a DNeasy blood and tissue kit (Qiagen #69504), labeled with a Sure Tag DNA kit (Agilent #5190-4240), and hybridized to 244K CGH microarrays (Agilent #G4415A) as previously described.
|
| Label |
Cy5
|
| Label protocol |
described in Herschkowitz et al., 2012, PNAS, 109:2778-2783
|
| |
|
| |
| Hybridization protocol |
described in Herschkowitz et al., 2012, PNAS, 109:2778-2783
|
| Scan protocol |
Fluorescent array images were collected for both Cy3 and Cy5 with an Agilent scanner and image intensity data were extracted and analyzed with Agilent Feature Extraction software
|
| Description |
Agilent Feature Extractor Software
|
| Data processing |
Data for both channels were Lowess-normalized and then the log(2) ratio was taken
|
| |
|
| Submission date |
Aug 06, 2018 |
| Last update date |
Jun 28, 2019 |
| Contact name |
Charles M. Perou |
| E-mail(s) |
[email protected]
|
| Organization name |
University of North Carolina at Chapel Hill
|
| Department |
Professor of Genetics, and Pathology & Laboratory Medicine; Lineberger Comprehensive Cancer Center
|
| Street address |
12-044 Lineberger Comprehensive Cancer Center CB# 7295
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-7264 |
| Country |
USA |
| |
|
| Platform ID |
GPL15076 |
| Series (2) |
| GSE118161 |
The MMTV-Wnt1 murine model produces two phenotypically distinct subtypes of mammary tumors with unique therapeutic responses to an EGFR inhibitor (Agilent CGH) |
| GSE118164 |
The MMTV-Wnt1 murine model produces two phenotypically distinct subtypes of mammary tumors with unique therapeutic responses to an EGFR inhibitor |
|
