|
| Status |
Public on Dec 26, 2018 |
| Title |
MCF-10A + pNG vector control rep1 |
| Sample type |
RNA |
| |
|
| Source name |
MCF-10A human mammary epithelial cell line
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: vector control
culture condition: Cells were cultured in normal MCF-10 growth media. RNA was harvested from proliferating monolayers at 70% confluence.
cell line: MCF-10
|
| Treatment protocol |
MCF-10A cells were retrovirally infected with Crb3 or vector control and puromycin selected.
|
| Growth protocol |
Cells were cultured in normal MCF-10 growth media.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated according to manufacturer’s protocol with TRIzol-reagent (Invitrogen).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNAs were prepared according to the Affymetrix standard labeling protocol.
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNAs were hybridized to the Affymetrix GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneArray Chip Scanner, HP/Affymetrix Inc.
|
| Data processing |
Background correction and normalization was performed using the Robust Multichip Average method implemented in the rma function of R/BioConductor. Differential expression was assessed using the empirical Bayes method implemented in the limma package. The criteria for selecting differentially expressed genes was a false discovery rate (FDR)-corrected p-value of less than 0.05 and a fold change greater than 1.5.
|
| |
|
| Submission date |
Jan 06, 2016 |
| Last update date |
Dec 26, 2018 |
| Contact name |
Joan S. Brugge |
| E-mail(s) |
joan_brugge@hms.harvard.edu
|
| Organization name |
Harvard Medical School
|
| Department |
Department of Cell Biology
|
| Lab |
Brugge
|
| Street address |
240 Longwood Avenue
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE76610 |
Overexpression of Crumbs3/CRB3 in human mammary epithelial line MCF-10A |
|
