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Sample GSM48255 Query DataSets for GSM48255
Status Public on Oct 06, 2005
Title APL,case 3,3IF,FC
Sample type RNA
 
Channel 1
Source name FLT3, ITD, Cy5
Organism Homo sapiens
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturer’s instructions.
Label protocol fluorescently-labelled cRNA was generated by in vitro transcription using Low RNA Input Fluorescent Linear Amplification Kit (Agilent Technologies, Palo Alto, CA) according to the manufacturer’s instructions.
 
Channel 2
Source name Universal Human reference Stratagene,Cy3
Organism Homo sapiens
Extracted molecule total RNA
Extraction protocol Universal Human Reference RNA (Stratagene, Cedar Creek, TX), used as reference control in all microarray gene-profiling experiments, consisted of equal amount of total RNA from 10 human cancer cell lines.
Label protocol fluorescently-labelled cRNA was generated by in vitro transcription using Low RNA Input Fluorescent Linear Amplification Kit (Agilent Technologies, Palo Alto, CA) according to the manufacturer’s instructions.
 
 
Hybridization protocol cRNA products were purified using RNeasy columns (Qiagen). Samples had to contain 10-20 picomoles of cyanine dye/ug of cRNA to be considered suitable for subsequent hybridization. 1 ug of Cy5-labelled cRNA was mixed with the same amount of Cy3-labelled reference cRNA and, then, mixed cRNAs were fragmented to an average size of 50-100 nt by incubation at 60°C for 30 min using in situ Hybridization kit-plus (Agilent). Samples were hybridised on Agilent Human 1A Oligo Microarray (V2), ink-jet printed microarray, comprising 20,173 (60-mer) experimentally validated oligonucleotide probes (features). After hybridization for 17 h at 60°C, slides were washed according to Agilent SSPE protocol instructions and then scanned using a confocal laser scanner (Agilent Technologies).
Scan protocol Fluorescence data were analysed with Feature Extraction Software v7.5 (Agilent Technologies).
Description APL patients with FLT3 ITD, 57 years at diagnosis (4/3/02), male, GB=21.2,Hb(g/dl)=10.4, PLT=21, circulant blasts=84%, DIC yes, LDH (IU/L)=1516, fibrinogen(mg/dl)=120,bcr3, variant M3 morphology, ATRA syndrome yes.
Keywords = APL
Keywords = FLT3
Keywords = ITD
Keywords = mutation
Lot batch = US22502667_251209729787
 
Submission date Apr 15, 2005
Last update date Aug 21, 2007
Contact name Rossana Maffei
E-mail(s) rossana.maffei@unimore.it
Phone +39 059 4222715
Organization name University of Modena and Reggio Emilia
Department Dept of Hematology and Oncology
Lab Lab of Molecular Hematology
Street address Via del Pozzo 71
City Modena
State/province Modena
ZIP/Postal code 41100
Country Italy
 
Platform ID GPL887
Series (1)
GSE2550 Gene expression profiling of Acute Promyelocytic Leukemia identifies two subtypes mainly associated with FLT3 ITD

Data table header descriptions
ID_REF
VALUE LogRatio (base 10)
CH1_SIG_MEAN Normalized red channel signal
CH2_SIG_MEAN Normalized green channel signal

Data table
ID_REF VALUE CH1_SIG_MEAN CH2_SIG_MEAN
1 -1.428023607 400.6736 10735.3
2 0.493813199 67.32901 21.59678
3 0.912429542 207.0591 25.33173
4 -0.07937239 27974.78 33584.52
5 0.056499851 2070.988 1818.351
6 0 27.01701 23.03419
7 -1.709987838 56.3913 2892.011
8 -0.054275726 2094.901 2373.773
9 0.351698872 2310.698 1028.121
10 0 53.96793 8.159566
11 0.429051688 98.4901 36.67253
12 -0.031811266 47.42787 51.03227
13 0 58.82914 8.336101
14 -2 16.92907 11287.29
15 0.092776075 9940.862 8028.751
16 0.790794253 114.8227 18.58804
17 0 57.77688 8.299847
18 1.083547972 206.0034 16.99521
20 0 57.16395 8.351083
21 -2 18.02771 10815.58

Total number of rows: 22153

Table truncated, full table size 762 Kbytes.




Supplementary file Size Download File type/resource
GSM48255.txt.gz 5.5 Mb (ftp)(http) TXT

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