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Sample GSM401478 Query DataSets for GSM401478
Status Public on May 12, 2009
Title P210_tp 3_biological replicate 2
Sample type RNA
 
Channel 1
Source name CD34+ cells expressing P210 BCR/ABL1, 4 days post transduction, replicate 2
Organism Homo sapiens
Characteristics cell type: CD34+ cord blood cells expressing P210 BCR/ABL1
time: 4 days post transduction
sample type: P210 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

Data table header descriptions
ID_REF
VALUE Normalized log2 value channel 1/Normalized log2 value channel 2, filtered (SNR > 2, SD >= 0.2, presence >= 90%)

Data table
ID_REF VALUE
14864 -0.301366756
27409 -0.568333017
9951 0.596711366
26501 0.045917101
6112 -1.095170074
5387 0.185589064
17999 1.045876608
7755 -0.563302252
14366 -0.712636546
29231 0.012382668
25451 -1.606920893
1759 0.070739547
18644 -1.026990541
14920 -1.612346474
19029 -0.335582302
12956 -0.017280664
28727
4227 -0.420275418
11861 0.288642265
433 -0.022908415

Total number of rows: 5147

Table truncated, full table size 90 Kbytes.




Supplementary file Size Download File type/resource
GSM401478.gpr.gz 2.3 Mb (ftp)(http) GPR
Processed data included within Sample table

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