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Status
Public on Dec 07, 2010
Title
Burkitt MPI-138_sty
Sample type
genomic
Source name
Whole tissue of tumor biopsy
Organism
Homo sapiens
Characteristics
sample type: tumor tissue: tumor disease state: Burkitt lymphoma
Extracted molecule
genomic DNA
Extraction protocol
QiaAmp DNA Blood Kit
Label
Biotin
Label protocol
As per manufacturer (Affymetrix)
Hybridization protocol
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol
The Arrays were washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
Description
Hybridized to 250K_Sty
Data processing
The CEL-Files were analyzed using the BRLMM-algorithm to produce genotype calls, stored in the corresponding CHP-Files. CEL- and CHP-Format by Affymetrix
Submission date
Apr 29, 2010
Last update date
Dec 07, 2010
Contact name
Rene Scholtysik
E-mail(s)
rene.scholtysik@uni-due.de
Organization name
University Hospital Essen
Department
IFZ
Street address
Virchowstrasse 173
City
Essen
ZIP/Postal code
45127
Country
Germany
Platform ID
GPL3720
Series (1)
GSE21597
Affymetrix SNP array data for Burkitt lymphoma samples
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
461
0
0
0
0
0
0
AFFX-5Q-456
No Call
353.5
0
0
0
0
0
0
AFFX-5Q-789
No Call
877
0
0
0
0
0
0
AFFX-5Q-ABC
No Call
1198.5
0
0
0
0
0
0
AFFX-barcodeA
No Call
216.5
0
0
0
0
0
0
AFFX-barcodeB
No Call
325
0
0
0
0
0
0
AFFX-barcodeC
No Call
86.5
0
0
0
0
0
0
AFFX-barcodeD
No Call
102.5
0
0
0
0
0
0
AFFX-barcodeE
No Call
132.5
0
0
0
0
0
0
AFFX-barcodeF
No Call
122.5
0
0
0
0
0
0
AFFX-barcodeG
No Call
147.5
0
0
0
0
0
0
AFFX-barcodeH
No Call
162
0
0
0
0
0
0
AFFX-barcodeI
No Call
170
0
0
0
0
0
0
AFFX-barcodeJ
No Call
198
0
0
0
0
0
0
AFFX-barcodeK
No Call
116
0
0
0
0
0
0
AFFX-barcodeL
No Call
110
0
0
0
0
0
0
AFFX-barcodeM
No Call
112.5
0
0
0
0
0
0
AFFX-barcodeN
No Call
210
0
0
0
0
0
0
AFFX-barcodeO
No Call
132
0
0
0
0
0
0
AFFX-barcodeP
No Call
149.5
0
0
0
0
0
0
Total number of rows: 238378 Table truncated, full table size 18422 Kbytes .Supplementary file
Size
Download
File type/resource
GSM539183_MPI-138_sty.CEL.gz
26.3 Mb
(ftp) (http)
CEL
GSM539183_Tumor_MPI-138.chp.gz
3.8 Mb
(ftp) (http)
CHP
Processed data included within Sample table
Processed data provided as supplementary file