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Sample GSM495822 Query DataSets for GSM495822
Status Public on Jan 13, 2010
Title Patient_42_6hr_AS602868_10µM_rep1
Sample type RNA
 
Source name Leukemic blasts, 6hr, AS602868, 10µM, repilicate 1
Organism Homo sapiens
Characteristics cell type: leukemic blast
gender: f
age: 56y
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 exposure of human leukemic blasts to 10 µM AS602868
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 1.34792391983394
775 1.32242158996718
824 1.3815759737858
1408 1.34611310343395
1778 1.38569299964165
2154 1.30829864020870
2240 1.30814470967557
2370 1.38618303562358
2391 1.31377684494808
2911 1.29863970300341
3154 1.31069387381822
3270 1.31281896919002
3350 1.30578961009970
4064 1.36297613694362
4080 1.36761119953439
4481 1.33992315948860
4641 1.31895632351191
4686 1.29430448587737
6457 1.35005584738689
6480 1.26050556881912

Total number of rows: 45015

Table truncated, full table size 995 Kbytes.




Supplementary file Size Download File type/resource
GSM495822_42_AS602868.txt.gz 7.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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