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Sample GSM495823 Query DataSets for GSM495823
Status Public on Jan 13, 2010
Title Patient_42_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: 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 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 1.65454945904566
775 1.48986343271180
824 1.77225667265925
1408 1.64166958443231
1778 1.73949076507433
2154 1.45245833758118
2240 1.45214408815509
2370 1.74190208403581
2391 1.45532507140583
2911 1.39986667037179
3154 1.45146406050393
3270 1.48934906097203
3350 1.45154109039760
4064 1.68836298228445
4080 1.60454696122840
4481 1.61589575899141
4641 1.52577795402428
4686 1.39133087245276
6457 1.57219977119219
6480 1.33042336819815

Total number of rows: 45015

Table truncated, full table size 995 Kbytes.

Supplementary file Size Download File type/resource
GSM495823_42_NT.txt.gz 7.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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