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Sample GSM391030 Query DataSets for GSM391030
Status Public on Oct 18, 2010
Title S_3_human:ALL case#3 :Bone Marrow
Sample type RNA
 
Source name ALL case#3 :Bone Marrow
Organism Homo sapiens
Characteristics sample tissue of origin: Bone Marrow
clinical status at collection: Relapse #2
age: 16
gender: F
clinical status: DOD
major cytogenetic abnormality: Not done
percent blasts in human: 94
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#3 :Bone Marrow
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

Data table header descriptions
ID_REF
VALUE Log2 Expression

Data table
ID_REF VALUE
ILMN_1762337 5.983636
ILMN_2055271 6.111687
ILMN_1736007 6.213743
ILMN_2383229 5.983782
ILMN_1806310 6.059453
ILMN_1779670 5.993357
ILMN_2321282 6.300497
ILMN_1671474 6.16001
ILMN_1772582 5.951523
ILMN_1735698 6.103846
ILMN_1653355 6.012921
ILMN_1717783 5.89081
ILMN_1705025 6.147765
ILMN_1814316 5.894174
ILMN_2359168 5.974466
ILMN_1731507 5.965529
ILMN_1787689 6.027886
ILMN_1745607 6.1597
ILMN_2136495 5.994196
ILMN_1668111 5.985187

Total number of rows: 48801

Table truncated, full table size 1045 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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