|
| Status |
Public on Jul 04, 2013 |
| Title |
lymphoma_4936_ADR |
| Sample type |
RNA |
| |
|
| Source name |
Primary lymphoma cells, isolated from lymph nodes of Emu-myc,Suv39h1-/- mice and retrovirally transduced by Bcl2, ADR treated
|
| Organism |
Mus musculus |
| Characteristics |
genotype: Emu-myc;Suv39h1-/-
transduction: Bcl2
cell type: primary lymphoma cells from lymph nodes
treatment: Adriamycin (ADR)
|
| Treatment protocol |
Freshly isolated lymphoma cells were retrovirally transduced by Bcl2 (MSCVpuro) and selected with Puromycin for 48h. These Myc;Bcl2 cells were either left untreated or treated in vitro with 0.05µg/ml Adriamycin for 5 days.
|
| Growth protocol |
Primary Emu-myc;Suv39h1-/- lymphoma cells were cultivated in B-cell medium (DMEM and IMDM in 1:1 ratio, 10%FBS, 4mM L-glutamine, 25µM beta-mercaptoethanol, 100U/ml penicilin/streptamycin) on gamma-irradiated (20Gy) NIH 3T3 cells as feeder.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA from untreated or 5 days ADR treated Myc;Bcl2 lymphomas was prepared using an RNeasy Mini kit (QIAGEN, Valencia, California) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol (One Cycle Target labeling protocol) from 3 ug total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45°C on MOE430 2.0 Arrays (Affymetrix). GeneChips were washed and stained with standard protocols in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Scanner G3000.
|
| Description |
Primary lymphoma cells isolated from lymph nodes of Emu-myc; Suv39h1-/- mice with palpable lymphadenopathy.
|
| Data processing |
Affymetrix CEL files were imported into Partek Genomic Suite Software (Version 6.5, Partek Inc., St. Louis, USA) and processed by the implemented RMA workflow (median polish probe set summarization, RMA background correction, quantile normalization).
|
| |
|
| Submission date |
Feb 15, 2013 |
| Last update date |
Jul 23, 2019 |
| Contact name |
Maja Milanovic |
| E-mail(s) |
[email protected]
|
| Organization name |
Charite University Medicine, Berlin
|
| Department |
Hematology and Oncology
|
| Lab |
Clemens Schmitt
|
| Street address |
Augustenburgerplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
13353 |
| Country |
Germany |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE44355 |
Expression data from Adriamycin-treated Emu-myc; Suv39h1-/- B-cell lymphoma |
|
| Relations |
| Reanalyzed by |
GSM3966994 |
