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| Status |
Public on May 05, 2011 |
| Title |
Orthotopic xenografts of RCC retain histological, immunophenotypic and genetic features of tumors in patients |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
|
| Summary |
Development of a clinically relevant animal models of RCC for preclinical investigations.
For DNA copy number analysis, the Sty I (250K) SNP array of the 500K Human Mapping Array (Affymetrix) was used. Arrays were scanned by GeneChip Scanner 3000 7G. Probe-level signal intensities were normalized to a baseline array with median intensity using invariant set normalization and SNP-level signal intensities were obtained using a model-based (PM/MM) method.
Keywords: SNP array data, renal cell carcinoma
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| Overall design |
To ensure at least 70% contribution from tumor cells, enriched tumor areas from 10 original RCCs and 10 corresponding xenografts were isolated from 7 µm-thick tissue frozen sections using a fine needle with the aid of an optical microscope. DNA was then extracted using phenol chloroform
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| |
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| Contributor(s) |
Grisanzio C, Seeley A, Chang M, Collins M, Di Napoli A, Cheng S, Percy A, Beroukhim R, Signoretti S |
| Citation(s) |
21710693 |
| Submission date |
May 04, 2011 |
| Last update date |
Nov 27, 2018 |
| Contact name |
Chiara Grisanzio |
| E-mail(s) |
cgrisanzio@partners.org
|
| Organization name |
DFCI
|
| Department |
Medical Oncology
|
| Street address |
44 Binney Street
|
| City |
Boston |
| ZIP/Postal code |
02115 |
| Country |
USA |
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| Platforms (1) |
| GPL6801 |
[GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array |
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| Samples (20)
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| Relations |
| BioProject |
PRJNA140243 |
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