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Sample GSM495825 Query DataSets for GSM495825
Status Public on Jan 13, 2010
Title Patient_43_6hr_NT_rep1
Sample type RNA
 
Source name Leukemic blasts, 6hr, untreated, repilicate 1
Organism Homo sapiens
Characteristics cell type: leukemic blast
gender: m
age: 75y
Treatment protocol Isolated leukemic blasts from AML patients were incubated in RPMI 1640 medium supplemented with 10% heat-inactivated fetal bovine serum in presence or absence of 10 µM AS602868 for 6 hours at 37 ºC in a humidified incubator with 5% CO2
Extracted molecule total RNA
Extraction protocol RNA was prepared using the RNeasy Mini Kit (Qiagen, Hilden, Germany) according to the manufacturer’s recommendations and quantified on a Nanodrop ND-1000 spectrophotometer (Nanodrop Technologies, Wilmington, DE, USA). RNA integrity was verified using the BioAnalyser 2100™ (Agilent Technologies, Palo Alto, CA, USA).
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer
 
Hybridization protocol Cy3-labelled cRNA was fragmented at 60 °C for 30 minutes in a reaction volume of 55 µl containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 55 µl of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Whole Human Genome 4 x 44K microarrays (G4112F) for 17 hours at 65 °C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37 °C GE Wash buffer 2 (Agilent).
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) with default settings, and data extracted by Feature Extraction software, version 9.5.
Description Gene expression after 6h incubation of human leukemic blasts
Data processing Data were normalized using the quantile method
 
Submission date Jan 12, 2010
Last update date Jan 12, 2010
Contact name Lars Petter Jordheim
E-mail(s) lars.jordheim@recherche.univ-lyon1.fr
Organization name INSERM U590
Street address 8 Av Rockefeller
City Lyon
ZIP/Postal code 69008
Country France
 
Platform ID GPL4133
Series (1)
GSE19853 Gene expression profile of fresh human acute myeloid leukemia cells exposed ex vivo to AS602868

Data table header descriptions
ID_REF
VALUE Log2 transformed quantile normalized signal intensity

Data table
ID_REF VALUE
556 1.70057320786021
775 1.46666634649740
824 1.75745398308804
1408 1.68393038789780
1778 1.75377239477555
2154 1.56839229978676
2240 1.56786244572886
2370 1.74980192089245
2391 1.48534476971469
2911 1.52278455460413
3154 1.47843083738144
3270 1.56280225918415
3350 1.54489615870697
4064 1.67354705408887
4080 1.64857691883266
4481 1.60874792809417
4641 1.53976797283460
4686 1.47620275302828
6457 1.57770083219351
6480 1.43865803959489

Total number of rows: 45015

Table truncated, full table size 995 Kbytes.




Supplementary file Size Download File type/resource
GSM495825_43_NT.txt.gz 7.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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