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Sample GSM495831 Query DataSets for GSM495831
Status Public on Jan 13, 2010
Title Patient_46_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: 76y
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 2.11177853918442
775 1.88905349954567
824 2.25338282290484
1408 2.08779301596834
1778 2.25964331216439
2154 1.89430933988478
2240 1.89251440518425
2370 2.24170161585691
2391 1.81880334966129
2911 1.79269970957493
3154 1.79497423278077
3270 1.89052438995757
3350 1.81476448315385
4064 2.11077752512956
4080 2.07877957544671
4481 2.01258519487199
4641 1.89097972203647
4686 1.72428291267893
6457 1.99280599918831
6480 2.05948267460154

Total number of rows: 45015

Table truncated, full table size 995 Kbytes.




Supplementary file Size Download File type/resource
GSM495831_46_NT.txt.gz 7.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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