|
Status |
Public on Dec 06, 2012 |
Title |
Uveal melanoma from enucleation 77 [RPCI] |
Sample type |
genomic |
|
|
Channel 1 |
Source name |
Uveal melanoma from enucleation 77
|
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 |
|