|
| Status |
Public on Jul 07, 2015 |
| Title |
ifn_total_1 |
| Sample type |
RNA |
| |
|
| Source name |
WISH cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: WISH
rna type: total
treatment: ifn
replicate: 1
|
| Treatment protocol |
WISH cells were trypsinized and plated in 10cm tissue culture dishes at 4 X 10^6 cells/dish. After 30 hrs, cells were re-fed with fresh medium with or without IFN (100pM) and/or mTOR inhibitors at saturating concentrations (rapamycin 100nM or Torin1 1M) for 12h.
|
| Growth protocol |
WISH cells were cultured as previously described [Francois-Newton V, Livingstone M, Payelle-Brogard B, Uze G, Pellegrini S (2012) USP18 establishes the transcriptional and anti-proliferative interferon alpha/beta differential. Biochem J 446: 509-516 and Marijanovic Z, Ragimbeau J, van der Heyden J, Uze G, Pellegrini S (2007) Comparable potency of IFNalpha2 and IFNbeta on immediate JAK/STAT activation but differential down-regulation of IFNAR2. Biochem J 407: 141-151]. WISH cells were obtained from G. Uzé (CNRS, Montpellier) and originate from ATCC (CCL-25). Their identity was compared to HeLa S3 cells by short tandem repeat (STR) loci profiling. This analysis, performed by IdentiCell (Department of Molecular Medicine, Aarhus University Hospital), showed that the two cell lines have identical STR profiles.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAeasy (Qiagen)
|
| Label |
Biotin
|
| Label protocol |
Single round labeling recommended by manufacturer.
|
| |
|
| Hybridization protocol |
Samples were hybridized with the Affymetrix Human Gene 1.1 ST Array according the instructions of the manufacturer
|
| Scan protocol |
Arrays were scanned using the GeneArray Scanner 3000 according to the instructions from the manufacturer.
|
| Description |
WISH cells were starved followed by treatment with dmso or with interferon in the presence of dmso, rapamycin or torin-1
|
| Data processing |
Data were extracted and normalized using a custom CDF and Robust Multi-array Average (RMA) in R (r-project.org) with default settings.
|
| |
|
| Submission date |
Jun 25, 2015 |
| Last update date |
Jul 07, 2015 |
| Contact name |
Ola Larsson |
| E-mail(s) |
ola.larsson@ki.se
|
| Phone |
+46 (0)8 517 73280
|
| Organization name |
Karolinska Institutet
|
| Department |
Department of oncology-pathology
|
| Street address |
CCK, R8:01
|
| City |
Stockholm |
| ZIP/Postal code |
171 76 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL18190 |
| Series (1) |
| GSE70270 |
Assessment of mTOR-Dependent Translational Regulation of Interferon Stimulated Genes |
|
