|
| Status |
Public on Apr 01, 2020 |
| Title |
RDES_shControl_dox+, 1 biological Rep, 96h [gene] |
| Sample type |
RNA |
| |
|
| Source name |
shControl construct
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: RDES
cell type: Ewing sarcoma cell line
treatment: non-coding
doxycycline: dox+
|
| Treatment protocol |
Cells were treated with 0.1 µg doxycycline pro ml medium for 96h to induce knockdown to 20-30%.
|
| Growth protocol |
120,000 cells/6-well were cultured for 96h.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested with trypsin and RNA was isolated.
|
| Label |
biotin
|
| Label protocol |
Affymetrix WT PLUS Labeling Kit.
|
| |
|
| Hybridization protocol |
Affymetrix Clariom D Array.
|
| Scan protocol |
Affymetrix Clariom D Array.
|
| Description |
RDES_shCtrl_08
|
| Data processing |
Samples were normalised (log2) with Affymetrix Expression Console Software (v1.4) using SST-RMA algorithm and annotated on exon/gene level with the library for Clariom D Array (human).
Probe group file: Clariom_D_Human.r1.pgf
Meta-probeset file: Clariom_D_Human.r1.mps
|
| |
|
| Submission date |
Sep 27, 2018 |
| Last update date |
Apr 01, 2020 |
| 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 (1) |
| GSE120576 |
Gene expression and exon splicing of two Ewing sarcoma cell lines (TC-32, RDES), transiently transfected with shControl or two different shRNA against SOX6 |
|
| Relations |
| Alternative to |
GSM3403621 (exon-level analysis) |
