|
| Status |
Public on Apr 12, 2020 |
| Title |
SKOV3 cells with CDCP1 siRNA rep1 |
| Sample type |
RNA |
| |
|
| Source name |
SKOV3 cells after treatment with siRNA against CDCP1 during 48h
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: SKOV3
treatment: siRNA against CDCP1 during 48h
cell type: Ovarian cancer
|
| Treatment protocol |
Cells were transfected with lipofectamine and 50 nM siRNA concentration for 48 h
|
| Growth protocol |
48 hours after transfecting the SKOV3 cell line with the corresponding siRNAs, cells were collected and harvested for total RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using miRNAeasy mini kit according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip® WT PLUS Reagent Kit, Manual Target Preparation for GeneChip®, Whole Transcript (WT) Expression Arrays)
|
| |
|
| Hybridization protocol |
Hybridization were prepared according to the standard Affymetrix protocol (GeneChip® WT PLUS Reagent Kit, Manual Target Preparation for GeneChip®, Whole Transcript (WT) Expression Arrays)
|
| Scan protocol |
Scan was performed according to the standard Affymetrix protocol (GeneChip® WT PLUS Reagent Kit, Manual Target Preparation for GeneChip®, Whole Transcript (WT) Expression Arrays)
|
| Description |
Gene expression data from ovarian cancer SKOV3 cell line upon depletion with siRNA against CDCP1 gene
CDCP1(1)
|
| Data processing |
Raw data was obtained from the High Technology Unit (VHIR) and was processed by Expression Console and TAC software, both publicly available. Briefly, normalization of the raw data (CEL files) and generation of principal component analysis were done with Affymetrix Expression Console software. To perform differential expression analysis between control and siCDCP1 or siPLAGL2 data, Affymetrix TAC software was used, which automatically analyze the fold change and statistical p-values based on one-way ANOVA t-test.
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| |
|
| Submission date |
Apr 13, 2018 |
| Last update date |
Apr 13, 2020 |
| Contact name |
Anna Santamaria |
| E-mail(s) |
anna.santamaria@vhir.org
|
| Organization name |
Vall Hebron Institut de REcerca
|
| Street address |
Pg/Vall Hebron 119-129
|
| City |
Barcelona |
| ZIP/Postal code |
08035 |
| Country |
Spain |
| |
|
| Platform ID |
GPL23159 |
| Series (1) |
| GSE113115 |
Expression data from ovarian cancer SKOV3 human cell line |
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