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| Status |
Public on Feb 01, 2010 |
| Title |
Affymetrix SNP array data for melanoma short-term cultures and cell lines |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
|
| Summary |
SNP arrays were used to derive copy number estimates and identify amplifications and deletions in melanomas
These copy number breakpoints were compared to gene fusions identified by second generation sequencing of cDNA
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| |
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| Overall design |
Affymetrix SNP 6.0 array hybridizations were performed for 3 melanomas and 15 normal diploid samples (in a batch of 96 total samples encompassing multiple studies).
Further normalization performed to convert signal intensities (see Sample data tables) into copy number log2 ratios for each probeset (see supplementary file at the foot of this record) using the 5 most similar HapMap normals, as described by the Cancer Genome Atlast Research Network, Nature (2008), 455:1061-1068.
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| |
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| Contributor(s) |
Berger MF, Garraway LA |
| Citation(s) |
20179022 |
| |
| Submission date |
Jul 27, 2009 |
| Last update date |
Nov 27, 2018 |
| Contact name |
Michael Berger |
| E-mail(s) |
berger@broadinstitute.org
|
| Organization name |
The Broad Instititute
|
| Department |
Cancer Program
|
| Street address |
7 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL6801 |
[GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array |
|
| Samples (18)
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| This SubSeries is part of SuperSeries: |
| GSE17593 |
Melanoma short-term cultures and cell lines: expression profiling and CNV analyses |
|
| Relations |
| BioProject |
PRJNA123405 |
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