|
| Status |
Public on Dec 06, 2012 |
| Title |
Uveal melanoma from enucleation 85 [RPCI] |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Uveal melanoma from enucleation 85
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Fresh frozen sample from enucleated eye
disease: Primary uveal melanoma tumor
gep class: 1
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was prepared using the Wizard Genomic DNA purification kit (Promega).
|
| Label |
Cy3
|
| Label protocol |
1μg of reference and test sample genomic DNA were individually fluorescently labeled using the BioArray CGH Labeling System following manufacturer's protocol.
|
| |
|
| Channel 2 |
| Source name |
Normal Human Male Reference DNA
|
| Organism |
Homo sapiens |
| Characteristics |
reference: Normal Human Male Reference DNA
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was prepared using the Wizard Genomic DNA purification kit (Promega).
|
| Label |
Cy5
|
| Label protocol |
1μg of reference and test sample genomic DNA were individually fluorescently labeled using the BioArray CGH Labeling System following manufacturer's protocol.
|
| |
|
| |
| Hybridization protocol |
DNA was hybridized to the arrays for 16 hours at 55°C using a GeneTAC hybridization station (Genomic Solutions, Inc.).
|
| Scan protocol |
The hybridized aCGH slides were then scanned using a GenePix 4200A Scanner (Molecular Devices) to generate images for both Cy3 (test) and Cy5 (control) channels.
Image analysis was performed using the ImaGene (version 6.0.1) software from BioDiscovery, Inc.
|
| Data processing |
A loess corrected log2 ratio of the background subtracted test/control was calculated for each clone to compensate for non-linear raw aCGH profiles in each sample.
|
| |
|
| Submission date |
Dec 05, 2012 |
| Last update date |
Dec 06, 2012 |
| Contact name |
Michael D Onken |
| Organization name |
Washington University School of Medicine
|
| Department |
Biochemistry & Molecular Biophysics
|
| Lab |
Box 8231
|
| Street address |
660 S. Euclid Ave
|
| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL16342 |
| Series (2) |
| GSE42738 |
Chromosomal changes in primary human uveal melanomas [RPCI] |
| GSE42740 |
Chromosomal changes in primary human uveal melanomas |
|
