|
| Status |
Public on May 01, 2009 |
| Title |
MALT074_Mapping50K_Xba240 |
| Sample type |
genomic |
| |
|
| Source name |
lymphoma primary specimen
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: non-Hodgkin's lymphoma (NHL), Primary
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
standard DNA extraction using PUREGENE DNA extracting kit (Gentra, USA)
|
| Label |
biotin
|
| Label protocol |
Affymetrix standard protocol
|
| |
|
| Hybridization protocol |
Affymetrix standard protocol
|
| Scan protocol |
Affymetrix standard protocol
|
| Description |
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT074_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.
|
| Data processing |
After appropriate normalization of mean array intensities, signal ratios between tumours and anonymous normal references were calculated in an allele-specific manner, and allele-specific copy numbers were inferred from the observed signal ratios based on the hidden Markov model using CNAG/AsCNAR 3.0 software (http://www.genome.umin.jp).
|
| |
|
| Submission date |
Sep 22, 2008 |
| Last update date |
Oct 16, 2009 |
| Contact name |
Motohiro Kato |
| Organization name |
University of Tokyo
|
| Street address |
7-3-1, Hongo, Bunkyo-ku
|
| City |
Tokyo |
| ZIP/Postal code |
113-8655 |
| Country |
Japan |
| |
|
| Platform ID |
GPL2005 |
| Series (1) |
|
