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Sample GSM495860 Query DataSets for GSM495860
Status Public on Jan 13, 2010
Title Patient_60_6hr_NT_rep1
Sample type RNA
Source name Leukemic blasts, 6hr, untreated, repilicate 1
Organism Homo sapiens
Characteristics cell type: leukemic blast
gender: f
age: 67y
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
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
VALUE Log2 transformed quantile normalized signal intensity

Data table
556 2.28784258842779
775 1.9523400233952
824 2.40121840149489
1408 2.26104882850628
1778 2.34769920890083
2154 2.03337722601866
2240 2.03200092865224
2370 2.35132855532217
2391 1.95603511964027
2911 1.95505637864019
3154 1.93840991232932
3270 2.0362421849067
3350 1.99455188585685
4064 2.25377742325887
4080 2.12066076164107
4481 2.1407214278431
4641 2.02356816567109
4686 1.85475472791948
6457 2.04644307501517
6480 1.68854254267927

Total number of rows: 45015

Table truncated, full table size 995 Kbytes.

Supplementary file Size Download File type/resource
GSM495860_60_NT.txt.gz 7.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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