|
Status |
Public on Oct 10, 2015 |
Title |
617381_17279_2 |
Sample type |
genomic |
|
|
Channel 1 |
Source name |
Tumor
|
Organism |
Homo sapiens |
Characteristics |
mutation status: GNAQ Q209L tissue: melanoma
|
Treatment protocol |
N/A
|
Growth protocol |
N/A
|
Extracted molecule |
genomic DNA |
Extraction protocol |
DNA was extracted using sodium thiocyanate as described in Wilson et al. Clinical Cancer Research 20(12):3328-37, 2014.
|
Label |
Cy5
|
Label protocol |
Tumor DNA was labeled using BioPrime® Array CGH Genomic Labeling System (Life Technologies, Grand Island, NY) according to manufacturer’s instructions
|
|
|
Channel 2 |
Source name |
Pooled Normal
|
Organism |
Homo sapiens |
Characteristics |
gender: Female sample type: reference
|
Treatment protocol |
N/A
|
Growth protocol |
N/A
|
Extracted molecule |
genomic DNA |
Extraction protocol |
DNA was extracted using sodium thiocyanate as described in Wilson et al. Clinical Cancer Research 20(12):3328-37, 2014.
|
Label |
Cy3
|
Label protocol |
Tumor DNA was labeled using BioPrime® Array CGH Genomic Labeling System (Life Technologies, Grand Island, NY) according to manufacturer’s instructions
|
|
|
|
Hybridization protocol |
Array-based comparative genomic hybridization (aCGH) was performed using the Agilent SurePrint G3 Human CGH 2x400K M microarrays following manufacturer’s instructions
|
Scan protocol |
Scanned on Agilent scanner
|
Data processing |
Images were quantified using Agilent Feature Extraction Software and extracted data were analyzed using BioDiscovery’s Nexus 7 copy-number software (Nexus Genomics Inc.)
|
|
|
Submission date |
Oct 09, 2015 |
Last update date |
Oct 10, 2015 |
Contact name |
Katherine Nathanson |
E-mail(s) |
knathans@exchange.upenn.edu
|
Organization name |
Perelman School of Medicine at the University of Pennsylvania
|
Street address |
421 Curie Blvd
|
City |
Philadelphia |
State/province |
PA |
ZIP/Postal code |
19103 |
Country |
USA |
|
|
Platform ID |
GPL9777 |
Series (1) |
GSE73899 |
Copy number analysis in melanoma tumor samples from E2603 |
|