|
| Status |
Public on Oct 18, 2010 |
| Title |
S_1_human:ALL case#1 :Peripheral Blood |
| Sample type |
RNA |
| |
|
| Source name |
ALL case#1 :Peripheral Blood
|
| Organism |
Homo sapiens |
| Characteristics |
sample tissue of origin: Peripheral Blood
clinical status at collection: Relapse #2
age: 3
gender: M
clinical status: DOD
major cytogenetic abnormality: t(9;22)(q34;q11) (BCR-ABL)
percent blasts in human: 100
cd10 in human: +
cd19 in human: +
cd20 in human: +
cd22 in human: +
cd34 in human: +
cd45 in human: +
cd13 in human: -
cd33 in human: -
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Thawed cell suspension was pelleted, resuspended in cold PBS and lysed in TRIzol Reagent (Invitrogen). RNA was isolated using a combined protocol, where the TRIzol extraction aqueous phase was mixed with an equal volume of 70% EtOH, applied to a Rneasy Midi column (Qiagen) and purified according to the manufactures instructions. RNA integrity was verified on a BioAnalyzer (Agilent). cDNA was synthesized by reverse transcription from 200 ng of total RNA and biotinylated cRNA targets were amplified by in vitro transcription using the TotalPrep-96 RNA Amplification Kit (Ambion)
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA targets were amplified by in vitro transcription using the TotalPrep-96 RNA Amplification Kit (Ambion)
|
| |
|
| Hybridization protocol |
Hybridization was to HumanWG-6_v3 arrays per manufacturer's instructions.
|
| Scan protocol |
Images were scanned using the Illumina BeadScan software.
|
| Description |
ALL case#1 :Peripheral Blood
|
| Data processing |
Data were processed using the Bioconductor package, lumi, using default values for background correction, variance stabilization transformation, and quantile normalization.
|
| |
|
| Submission date |
Apr 09, 2009 |
| Last update date |
Oct 18, 2010 |
| Contact name |
Sean Davis |
| E-mail(s) |
sdavis2@mail.nih.gov
|
| Phone |
301-435-2652
|
| Organization name |
National Cancer Institute
|
| Lab |
Genetics Branch
|
| Street address |
37 Convent Drive, Room 6138
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL6884 |
| Series (1) |
| GSE15621 |
Acute Lymphocytic Leukemia versus associated xenografts |
|
