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| Status |
Public on Jul 10, 2009 |
| Title |
All Tumor Sector Experiments (T1-T20) |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by genome tiling array
|
| Summary |
This SuperSeries is composed of the SubSeries listed below.
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| Overall design |
ROMA CGH experiments were conducted on four to six dissected sectors (S1-S6) from single primary ductal carcinomas (T1-T20). T1-T4 were analyzed by sectoring and analysis by ROMA. T5-T20 were analyzed using the Sector-Ploidy-Profiling (SPP) Approach. SPP involves macro-dissecting the tumor, flow-sorting nuclei by differences in total genomic DNA content and profiling the genome of the tumor subpopulations.
The genomic DNA from each tumor was labeled with Cy5 and a reference fibroblast genome was labeled with Cy3 and cohybridized to a ROMA microarray (85K or 390K). Experiments were performed in color-reversal by dye-swapping samples and hybridizing the labeled DNA to a second microarray for T1-T15 experiments, but not for T16-T20 experiments.
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| Citation(s) |
19846608, 19903760 |
| |
| Submission date |
Jun 17, 2009 |
| Last update date |
Dec 27, 2012 |
| Contact name |
Nicholas Navin |
| Organization name |
Cold Spring Harbor Laboratory
|
| Lab |
Wigler Lab
|
| Street address |
1 Bungtown Road
|
| City |
Cold Spring Harbor |
| State/province |
NY |
| ZIP/Postal code |
11724 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL8581 |
85KV4 ROMA Custom Human Microarray (Format 28) |
| GPL8720 |
ROMA 390K Rubble Rep Human Microarray (Design 36) |
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| Samples (117)
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| This SuperSeries is composed of the following SubSeries:
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| Relations |
| BioProject |
PRJNA117387 |
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