|
| Status |
Public on May 12, 2009 |
| Title |
P190_tp 3_biological replicate 1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
CD34+ cells expressing P190 BCR/ABL1, 4 days post transduction, replicate 1
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD34+ cord blood cells expressing P190 BCR/ABL1
time: 4 days post transduction
sample type: P190 BCR/ABL1
|
| Biomaterial provider |
Umbilical cord blood samples were collected from normal deliveries after obtaining informed consent. Retroviral vectors were provided as described (Järås et al., 2009, Exp Hematol)
|
| Treatment protocol |
none
|
| Growth protocol |
cells were grown as described (Järås et al., 2009, Exp Hematol)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction followed by purification using RNeasy
|
| Label |
Cy3
|
| Label protocol |
Samples were labeled using the Agilent low RNA input fluorescent linear amplification kit (Agilent Technologies)
|
| |
|
| Channel 2 |
| Source name |
Stratagene Universal Human Reference RNA
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: RNA pooled from ten human cell lines
|
| Biomaterial provider |
Stratagene
|
| Treatment protocol |
none
|
| Growth protocol |
none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
None
|
| Label |
Cy5
|
| Label protocol |
Samples were labeled using the Agilent low RNA input fluorescent linear amplification kit (Agilent Technologies)
|
| |
|
| |
| Hybridization protocol |
Arrays were hybridized and washed as described (Järås et al., 20089, Exp Hematol)
|
| Scan protocol |
Arrays were scanned in an Agilent Microarray scanner
|
| Description |
oligo microarray data
|
| Data processing |
Spot quality was analyzed with GenePix 4.0 software. Raw data were normalized (pin-based Lowess regression) and filtered (SNR > 2, SD >= 0.2, presence >= 90%) in the BioArray Software Environment (BASE).
|
| |
|
| Submission date |
May 11, 2009 |
| Last update date |
May 11, 2009 |
| Contact name |
Petra Johnels |
| E-mail(s) |
petra.johnels@med.lu.se, thoas.fioretos@med.lu.se
|
| Phone |
+46 46 173398
|
| Fax |
+46 46 131061
|
| Organization name |
Lund University
|
| Department |
Clinical Genetics
|
| Street address |
Lund University Hospital
|
| City |
Lund |
| ZIP/Postal code |
221 85 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL5886 |
| Series (1) |
| GSE16042 |
Retroviral transduction of CD34+ cells with P190 and P210 BCR/ABL1 fusion genes |
|
