|
| Status |
Public on Aug 09, 2013 |
| Title |
JAK2 mutant |
| Sample type |
RNA |
| |
|
| Source name |
JAK2 mutant
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: KBM7 chronic myeloid leukemia (CML) cells
genotype/variation: JAK2 mutant
agent: unstimulated
|
| Treatment protocol |
Log phase proliferating cells were stimulated with IFN-gamma (100ng/ml, Peprotech) or TNF-alpha (10ng/ml, Peprotech) for 6 hours or left untreated. Sample WT_1 corresponds with the control sample for the IFN-gamma stimulation; Sample WT_2 corresponds with the control sample for the TNF-alpha stimulation.
|
| Growth protocol |
KBM7 cells were maintained in Iscove’s Modified Dulbecco’s Medium (IMDM) supplemented with 10% fetal calf serum and 1% penicillin/streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated with the RNeasy Mini Kit from Qiagen with the help of the QIAcube robot.
|
| Label |
Biotin
|
| Label protocol |
100ng of total RNA were amplified and labeled using the Affymetix Genechip 3` IVT Express Kit (Catalog Number 901228, Affymetrix, Santa Clara, CA)
|
| |
|
| Hybridization protocol |
Affymetrix GeneChip® Human PrimeView arrays were washed, stained and scanned according to the protocol described in GeneChip® 3` IVT Express Kit User Manual (Fluidics Protocol FS450_0002)
|
| Scan protocol |
Scanning was done on an Affymetrix GeneChip Scanner 3000 7G, software AGCC 3.1.1
|
| Description |
Gene expression from unstimulated cells lacking JAK2 expression
Sample JAK2
|
| Data processing |
RMA (Robust Multiarray average) Signal extraction using Affymetrix Expression Console Version 1.1
|
| |
|
| Submission date |
Jul 13, 2013 |
| Last update date |
Aug 09, 2013 |
| Contact name |
Sebastian M Nijman |
| E-mail(s) |
snijman@cemm.oeaw.ac.at
|
| Organization name |
Research Center for Molecular Medicine
|
| Lab |
Nijman
|
| Street address |
Lazarettgasse 14
|
| City |
Vienna |
| ZIP/Postal code |
1090 |
| Country |
Austria |
| |
|
| Platform ID |
GPL15207 |
| Series (1) |
| GSE48848 |
KBM7 genetrap mutant cells stimulated with TNF-alpha and IFN-gamma |
|
