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| Status |
Public on Dec 23, 2013 |
| Title |
Tumor MPI-115 sty |
| 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.
|
| 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.
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| |
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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 |
GPL3720 |
| 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 |
|
| 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 |
484.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-5Q-456 |
No Call |
335 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-5Q-789 |
No Call |
882.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-5Q-ABC |
No Call |
1175.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeA |
No Call |
202.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeB |
No Call |
331.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeC |
No Call |
112 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeD |
No Call |
88.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeE |
No Call |
107 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeF |
No Call |
125.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeG |
No Call |
145.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeH |
No Call |
141 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeI |
No Call |
165 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeJ |
No Call |
173 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeK |
No Call |
146.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeL |
No Call |
150 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeM |
No Call |
122.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeN |
No Call |
182.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeO |
No Call |
136.5 |
0 |
0 |
0 |
0 |
0 |
0 |
| AFFX-barcodeP |
No Call |
159 |
0 |
0 |
0 |
0 |
0 |
0 |
Total number of rows: 238378
Table truncated, full table size 18399 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM840307.CEL.gz |
26.3 Mb |
(ftp)(http) |
CEL |
| GSM840307.CHP.gz |
3.8 Mb |
(ftp)(http) |
CHP |
| Processed data provided as supplementary file |
| Processed data included within Sample table |
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