|
| Status |
Public on Sep 16, 2019 |
| Title |
A5 |
| Sample type |
RNA |
| |
|
| Source name |
leukemic blast
|
| Organism |
Homo sapiens |
| Characteristics |
all subtype: ETV6-RUNX1
batch: E
|
| Growth protocol |
Primairy human leukemic cells were isolated at initial diagnosis (blast percentage >90%)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
8ul 125ng/ul was used as input for the Affymetrix in vitro one cycle kit, followed by IVT labelling (Affymetrix)
|
| |
|
| Hybridization protocol |
Affymetrix hybridization kit was used including fragmentation according to Affymetrix's protocol. Arrays were washed and stained in the Affymetrix Fluidics Station 400
|
| Scan protocol |
The arrays were scanned using the Affymetrix Genechip scanner
|
| Description |
blast percentage >90%
|
| Data processing |
R-version 2.13.0 with Bioconductor packages affy version 1.30.0, vsn version 3.20.0 and biobase version 2.12.1 were used to extract data according to rma and to normalize using VSN. Combat was used to correct for different batches.
|
| |
|
| Submission date |
Sep 19, 2016 |
| Last update date |
Sep 16, 2019 |
| Contact name |
Judith M. Boer |
| E-mail(s) |
[email protected]
|
| Organization name |
Prinses Maxima Centrum
|
| Street address |
Heidelberglaan 25
|
| City |
Utrecht |
| ZIP/Postal code |
3584 CS |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE87070 |
Autophagy driving ETV6-RUNX1 positive leukaemia |
|
