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| Status |
Public on Dec 23, 2013 |
| Title |
Tumor MPI-031 nsp |
| Sample type |
genomic |
| |
|
| Source name |
Whole tissue of tumor biopsy
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: tumor
tissue: tumor
disease state: aggressive B-cell 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.
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| Scan protocol |
The Arrays were washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
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| Description |
Hybridized to 250K_Nsp
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| Data processing |
The CEL-Files were analyzed using the BRLMM-algorithm to produce genotype calls, stored in the corresponding CHP-Files.
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| Submission date |
Nov 29, 2011 |
| Last update date |
Dec 23, 2013 |
| 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 |
GPL3718 |
| Series (1) |
| GSE34005 |
Affymetrix SNP array data for recurrent deletion in 19p in DLBCLs and BLs |
|
| 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 |
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| 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 |
441 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-5Q-456 |
No Call |
414.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-5Q-789 |
No Call |
858 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-5Q-ABC |
No Call |
1466 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeA |
No Call |
175.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeB |
No Call |
274.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeC |
No Call |
96.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeD |
No Call |
98 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeE |
No Call |
120.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeF |
No Call |
115 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeG |
No Call |
143 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeH |
No Call |
152.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeI |
No Call |
189.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeJ |
No Call |
132.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeK |
No Call |
89.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeL |
No Call |
122 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeM |
No Call |
105 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeN |
No Call |
146 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeO |
No Call |
127.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeP |
No Call |
165.5 |
0 |
0 |
0 |
0 |
0 |
0 |
Total number of rows: 262338
Table truncated, full table size 20315 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM840290.CEL.gz |
25.5 Mb |
(ftp)(http) |
CEL |
| GSM840290.CHP.gz |
4.1 Mb |
(ftp)(http) |
CHP |
| Processed data provided as supplementary file |
| Processed data included within Sample table |
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