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Sample GSM539183 Query DataSets for GSM539183
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

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