|
| Status |
Public on Dec 13, 2011 |
| Title |
S2 cells, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
untreated S2 cells_Mock
|
| Organism |
Drosophila melanogaster |
| Characteristics |
cell line: Drosophila S2
genotype/variation: untreated S2 cells (Mock)
|
| Treatment protocol |
Drosophila S2 cells were treated with double-stranded RNA (dsRNA) for 4 days as described (Worby, C. A., N. Simonson-Leff, and J. E. Dixon. 2001. RNA interference of gene expression (RNAi) in cultured Drosophila cells. Sci. STKE 2001:PL1). Double-stranded RNA was synthesized using an Ambion Megascript T7 kit according to the manufacturer's protocol.
|
| Growth protocol |
Drosophila S2 cells were cultured in Schneider's media (Invitrogen 21720-024) supplied with 10% FBS and Penicillin/Streptomycin mixture at 25°C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the SV Total RNA Isolation System (Promega) and tested on an Agilent BioAnalyzer (Agilent). Samples with RNA integrity numbers of >8 were selected.
|
| Label |
biotin
|
| Label protocol |
One cycle labeling was performed according to the standard Affymetrix protocol from 7 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Hybridization was performed by the microarray core facility of the Erasmus MC Center for Biomics according to Affymetrix specifications (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| Scan protocol |
Scanning was performed by the microarray core facility of the Erasmus MC Center for Biomics.
|
| Description |
S2 Mock #1
|
| Data processing |
Statistical analysis of the microarray data was performed using the R and Bioconductor free software (http://www.bioconductor.org). Gene expression values were calculated using the robust multichip average (gcRMA) algorithm implemented in gcrma package.
|
| |
|
| Submission date |
Dec 12, 2011 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Yuri Moshkin |
| E-mail(s) |
i.mochkine@erasmusmc.nl
|
| Phone |
0031-10-7043335
|
| Organization name |
Erasmus University Medical Center
|
| Street address |
Dr. Molewaterplein 50
|
| City |
Rotterdam |
| ZIP/Postal code |
3015 GE |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL1322 |
| Series (1) |
| GSE34390 |
dKDM2 couples histone H2A ubiquitylation to histone H3 demethylation during Polycomb group silencing. |
|
| Relations |
| Reanalyzed by |
GSE119084 |
