|
| Status |
Public on Feb 16, 2012 |
| Title |
shSca-1-treated Wnt1-YL cells, biological rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
knockdown of Sca-1 by shRNA
|
| Organism |
Mus musculus |
| Characteristics |
cell line: Wnt1-YL
tissue: derived from primary MMTV-Wnt1 mammary tumors
|
| Growth protocol |
Mouse mammary tumor cell line (Wnt1-YL), derived from primary MMTV-Wnt1 breast tumors. The cells were grown in DMEM/F12 (Invitrogen) at ph7.6, with 2% adult bovine serum (Gemini Bio-Products), antibiotic/antimycotic (invitrogen), 5 μg/ml gentimycin (Sigma), 10 μg/ml insulin (invitrogen) and 5 ng/mL EGF (invitrogen).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cells using TRIzol Reagent (Invitrogen) and then cDNA was made from total RNA with SuperScript II (Invitrogen) using random primers. cDNA was treated with RNase H (Invitrogen) to remove RNA.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
|
| Scan protocol |
GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
|
| Description |
knockdown of Sca-1 by shRNA in mouse mammary tumor cell line (Wnt1-YL), rep 2
|
| Data processing |
The data were analyzed with dChip version2006 using Affymetrix default analysis settings and invariant set normalization method.
|
| |
|
| Submission date |
Jul 14, 2011 |
| Last update date |
Feb 16, 2012 |
| Contact name |
Chad Creighton |
| E-mail(s) |
creighto@bcm.tmc.edu
|
| Organization name |
Baylor College of Medicine
|
| Department |
Biostatistics, Ducan Cancer Center
|
| Street address |
One Baylor Plaza, Mail Stop: BCM305
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE30684 |
Stem Cell Antigen-1 (Sca-1) Regulates Mammary Tumor Development and Cell Migration |
|
