|
Status |
Public on Feb 23, 2021 |
Title |
cell transfected siFra-2-rep1 |
Sample type |
RNA |
|
|
Source name |
MDA-MB-231
|
Organism |
Homo sapiens |
Characteristics |
batch: T1- transcriptome 1 cell line: MDA-MB-231 treatment: siFra2 replicate: A
|
Growth protocol |
MDA-MB-231 cells were cultured in in Dulbecco’s modified Eagle’s medium containing 10% fetal calf serum and penicillin/streptomycin (100µg/ml each)
|
Extracted molecule |
total RNA |
Extraction protocol |
RNAs were extracted using the Qiagen miRNeasy kit according to the supplier's specifications and controlled for purity and integrity using the Agilent Bioanalyser with RNA600 nano LabChipkits (Agilent technologies). On-column DNAse I digestions were performed as described in the user’s guide. RNA with neither signs of contamination nor of degradation (RIN>9) were further processed to generate aplified and biotinylated sense-strand cDNA
|
Label |
Biotin
|
Label protocol |
biotinylated sense-strand cDNA were produced using the GeneChip WT PLUS Reagent kit from Affymetrix according to the manufacturer’s specifications
|
|
|
Hybridization protocol |
cDNA targets were used to probe Affymetrix GeneChip Human Gene 2.0 ST arrays, which were then washed, stained and scanned according to Affymetrix instructions (user manual P/N 702731 Rev. 3)
|
Scan protocol |
GeneChips were scanned using GeneChip Scanner 3000
|
Data processing |
21 CEL (7 conditions, n=3 each) files generated after array scanning were imported into the Partek Genomics Suite 6.6 (Partek) for preprocessing (default Partek options)
|
|
|
Submission date |
Mar 11, 2020 |
Last update date |
Feb 23, 2021 |
Contact name |
Isabelle Jariel-Encontre |
E-mail(s) |
[email protected]
|
Phone |
00 33 (0)4 11 28 31 53
|
Organization name |
IRCM-U1194- INSERM
|
Street address |
208 Avenue des Apothicaires
|
City |
Montpellier |
State/province |
Montpellier Cedex5 |
ZIP/Postal code |
34298 |
Country |
France |
|
|
Platform ID |
GPL16686 |
Series (2) |
GSE146823 |
Identification of Fra-1 and/or Fra-2 regulated genes in MDA-MB231 cells |
GSE146825 |
Transcriptional regulation by Fra-1 in triple negative breast cancers |
|