|
| Status |
Public on Jun 09, 2021 |
| Title |
A673_EETS_high_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Ewing sarcoma cell line stably transduced with inducible shRNA expressing construct targeting the respective EWSR1-ETS fusion oncogene
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A-673
cell type: Ewing sarcoma cell line
genotype: Control
|
| Treatment protocol |
Addition of 1 µg/ml doxycycline for 96 h, medium renewal at 48 h.
|
| Growth protocol |
Cell lines were cultured in RPMI 1640 medium with stable glutamine (Biochrom, Berlin, Germany), supplemented with 10% FCS tested to be dox-free (Sigma-Aldrich, Taufkirchen, Germany) and penicillin and streptomycin (final concentrations 100 units/ml and 100µg/ml, respectively; Merck, Darmstadt, Germany) in tissue culture flasks and plates (TPP, Trasadingen, Switzerland) in a fully humidified 5% CO2 atmosphere at 37°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were washed with PBS, lysed in lysis buffer from the Macherey-Nagel (Düren, Germany) NucleoSpin RNA kit. Total RNA was isolated following manufacturer's protocol. RNA was stored at -80°C.
|
| Label |
biotin
|
| Label protocol |
Affymetrix GeneChip WT PLUS Reagent Kit, according to the manufacturer's protocol
|
| |
|
| Hybridization protocol |
Affymetrix Clariom D Array one-color based hybridization protocol, cDNA samples were hybridized at 45°C for 16 h on separate Affymetrix Human Clariom D™ Arrays.
|
| Scan protocol |
Affymetrix GeneChip 3000 Scanner
|
| Description |
Ewing sarcoma cell line A-673; Control sample; replicate 2
|
| Data processing |
Data were processed with Transcriptome Analysis Console (version 4.0) using the SST-RMA analysis algorithm.
Clariom_D_Human.r1.pgf
Clariom_D_Human.r1.mps
|
| |
|
| Submission date |
Jun 04, 2021 |
| Last update date |
Jun 09, 2022 |
| Contact name |
Thomas Georg Philipp Grunewald |
| E-mail(s) |
t.gruenewald@kitz-heidelberg.de
|
| Phone |
0049-6221-423718
|
| Organization name |
German Cancer Research Center (DKFZ)
|
| Department |
Division of Translational Pediatric Sarcoma Research
|
| Street address |
Im Neuenheimer Feld 280
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23126 |
| Series (2) |
| GSE176190 |
The Ewing Sarcoma Cell Line Atlas (ESCLA) - expression profiling of 18 Ewing sarcoma cell lines in EWSR1-ETS-high versus -low condition |
| GSE176339 |
The Ewing Sarcoma Cell Line Atlas (ESCLA) |
|
