|
| Status |
Public on Sep 01, 2009 |
| Title |
Stat3wt/wt/NIC Pool 2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
mammary epithelial tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: mammary epithelial tumor
gender: female
parity: virgin
strain: Stat3wt/wt/MMTV-NIC
tumor stage: 6 weeks post palpation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from flash frozen mammary tumor samples using a Qiagen Rneasy Midi Kit
|
| Label |
Cy5
|
| Label protocol |
RNA samples were labeled using an Amino Allyl MessageAmp II aRNA Amplification Kit (Applied Biosystems) and Cy5 dye (Amersham Biosciences)
|
| |
|
| Channel 2 |
| Source name |
Stratagene universal mouse reference
|
| Organism |
Mus musculus |
| Characteristics |
reference: Stratagene universal mouse reference
|
| Biomaterial provider |
Stratagene
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from flash frozen mammary tumor samples using a Qiagen Rneasy Midi Kit
|
| Label |
Cy3
|
| Label protocol |
RNA samples were labeled using an Amino Allyl MessageAmp II aRNA Amplification Kit (Applied Biosystems) and Cy5 dye (Amersham Biosciences)
|
| |
|
| |
| Hybridization protocol |
Dye-labeled RNA was hybridized onto a Whole Mouse Genome Oligo 4x44K Microarray platform (Agilent) against a universal mouse reference RNA (Stratagene)
|
| Scan protocol |
The resulting arrays were scanned using a Microarray Scanner (Model G2565BA, Agilent Technologies)
|
| Description |
WT_74_1
|
| Data processing |
The arrays were processed using Feature Extraction software (Agilent). Raw Cy5 and Cy3 intensities were background corrected using the RMA background correction algorithm. Data was transformed to log2 ratios and within array normalization was performed using spatial and intensity-dependent loess.
|
| |
|
| Submission date |
Apr 10, 2009 |
| Last update date |
Sep 01, 2009 |
| Contact name |
Solmaz Shahalizadeh |
| E-mail(s) |
solmaz@mcb.mcgill.ca
|
| Phone |
1-514-398-7071 00719
|
| Fax |
1-514-398-3387
|
| URL |
http://www.mcgill.ca/mcb/
|
| Organization name |
McGill University
|
| Department |
McGill Centre for Bioinformatics
|
| Lab |
Michael Hallett
|
| Street address |
3649 Prom. Sir-William-Osler, Room 435
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H3G 0B1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL4134 |
| Series (1) |
| GSE15632 |
Gene expression profiling of Stat3flx/flx/NIC breast tumors compared to wild type NIC tumors. |
|
