|
Status |
Public on Oct 17, 2009 |
Title |
FL040_Mapping250K_Nsp |
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. 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).
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|
|
Submission date |
Oct 16, 2009 |
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 |
GPL3718 |
Series (1) |
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