|
| Status |
Public on Dec 24, 2011 |
| Title |
HCC1937/BRCA1, replicate1 |
| Sample type |
RNA |
| |
|
| Source name |
HCC1937/BRCA1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCC1937/BRCA1
cell type: breast cancer cells
brca1 expression: yes
|
| Growth protocol |
Cell lines were grown in 10% FBS DMEM media with 2% penicillin/streptomycin at 37ºC, 5% CO2 atmosphere and 80% humidity.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cell pellets using Trizol following the manufacturer's recommendations.
|
| Label |
Hy3
|
| Label protocol |
300ng of total RNA were treated with Calf Intestine Phosphatase and than labeled with Hy3 fluorescent dye.
|
| |
|
| Hybridization protocol |
Exiqon miRNA microarray slides containing denaturated labeled RNA in 1x hybridization buffer were hybridized at 56ºC for 16h.
|
| Scan protocol |
Slides were scanned using an Agilent array scanner set to 10μm wit 100PMT sensitivity in an ozone-free-environment. Fluorescence intensities on scanned images were quantified using Feature Extraction software (Agilent) using the modified Exiqon protocol.
|
| Description |
BRCA1 gene is expressed.
|
| Data processing |
Background correction was carried out using normexp, and data was normalized using quantiles between-arrays normalization. Data processing was carried out using Bioconductor´s limma package.
|
| |
|
| Submission date |
Jul 18, 2011 |
| Last update date |
Dec 24, 2011 |
| Contact name |
Beatriz Martinez |
| E-mail(s) |
bmartinez@cnio.es
|
| Organization name |
Spanish National Cancer Research Centre (CNIO)
|
| Department |
Human Cancer Genetics
|
| Street address |
Calle Melchor Fernandez Almagro 3
|
| City |
Madrid |
| ZIP/Postal code |
28029 |
| Country |
Spain |
| |
|
| Platform ID |
GPL7723 |
| Series (2) |
| GSE30763 |
Integration of BRCA1-mediated miRNA and mRNA signatures reveal miR-146a, miR-99b and miR-205 regulation of the TRAF2 and NFkB pathways (miRNA dataset) |
| GSE30822 |
Integration of BRCA1-mediated miRNA and mRNA signatures reveal miR-146a, miR-99b and miR-205 regulation of the TRAF2 and NFkB pathways |
|
