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Sample GSM393281 Query DataSets for GSM393281
Status Public on Jan 04, 2010
Title Germline AE-#2, Hind SNP array
Sample type genomic
 
Source name Germline AE-#2
Organism Homo sapiens
Characteristics tissue: acute myeloid leukemia
Growth protocol Cryopreserved peripheral blood or bone marrow samples obtained at diagnosis or remission.
Extracted molecule genomic DNA
Extraction protocol Qiagen DNA blood mini or phenol chloroform.
Label Biotin
Label protocol As per manufacturer (Affymetrix).
 
Hybridization protocol As per manufacturer (Affymetrix).
Scan protocol As per manufacturer (Affymetrix).
Description PN-AE-#2
Data processing CEL files and CHP files (generated by Dynamic Model 3.0) were processed by dChip and model-based expression performed using the PM-only model. Normalization was performed using the reference normalization algorithm developed at St Jude and described in Mullighan et al Nature 2007;446:758. The data matrix contains the normalized expression values produced by that algorithm.
 
Submission date Apr 16, 2009
Last update date Jan 04, 2010
Contact name Guangchun Song
Phone 901-595-5722
Organization name St Jude Children's Research Hospital
Department Pathology
Lab Klco
Street address 262 Danny Thomas Place
City Memphis
State/province TN
ZIP/Postal code 38105
Country USA
 
Platform ID GPL2004
Series (2)
GSE15347 Analysis of pediatric acute myeloid leukemia (AML) samples at diagnosis
GSE15714 Affymetrix SNP array data for pediatric acute myeloid leukemia (AML) samples at diagnosis: Hind SNP array

Data table header descriptions
ID_REF
VALUE Genotypes: AA, AB, BB, No Call
CONFIDENCE
RAS1 Relative allele signal for the data in the first probe group
RAS2 Relative allele signal for the data in the second probe group
P-VALUE AA
P-VALUE AB
P-VALUE BB
P-VALUE NO CALL

Data table
ID_REF VALUE CONFIDENCE RAS1 RAS2 P-VALUE AA P-VALUE AB P-VALUE BB P-VALUE NO CALL
AFFX-5Q-123 No Call 0 0 0 0 0 0 0
AFFX-5Q-456 No Call 0 0 0 0 0 0 0
AFFX-5Q-789 No Call 0 0 0 0 0 0 0
AFFX-5Q-ABC No Call 0 0 0 0 0 0 0
AFFX-barcodeA No Call 0 0 0 0 0 0 0
AFFX-barcodeB No Call 0 0 0 0 0 0 0
AFFX-barcodeC No Call 0 0 0 0 0 0 0
AFFX-barcodeD No Call 0 0 0 0 0 0 0
AFFX-barcodeE No Call 0 0 0 0 0 0 0
AFFX-barcodeF No Call 0 0 0 0 0 0 0
AFFX-barcodeG No Call 0 0 0 0 0 0 0
AFFX-barcodeH No Call 0 0 0 0 0 0 0
AFFX-barcodeI No Call 0 0 0 0 0 0 0
AFFX-barcodeJ No Call 0 0 0 0 0 0 0
AFFX-barcodeK No Call 0 0 0 0 0 0 0
AFFX-barcodeL No Call 0 0 0 0 0 0 0
AFFX-barcodeM No Call 0 0 0 0 0 0 0
AFFX-barcodeN No Call 0 0 0 0 0 0 0
AFFX-barcodeO No Call 0 0 0 0 0 0 0
AFFX-barcodeP No Call 0 0 0 0 0 0 0

Total number of rows: 57299

Table truncated, full table size 4753 Kbytes.




Supplementary file Size Download File type/resource
GSM393281.CEL.gz 11.4 Mb (ftp)(http) CEL
GSM393281.CHP.gz 163.1 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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