|
| Status |
Public on Jan 16, 2013 |
| Title |
SCC of the vulva 03-1011 aCGH |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
tumor tissue
|
| Organism |
Homo sapiens |
| Characteristics |
differentiation: well and moderately differentiated
tissue: squamous cell carcinoma tumor
individual: 03-1011
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from fresh-frozen tissue using the MagAttract DNA Mini M48 kit (Qiagen Inc., Valencia, CA, USA).
|
| Label |
Cy3
|
| Label protocol |
DNA was labeled according to the manufacturer’s instructions.
|
| |
|
| Channel 2 |
| Source name |
control DNA (supplied by Agilent)
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: Cat nr G1521 Human Genomic DNA Female from Promega
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from fresh-frozen tissue using the MagAttract DNA Mini M48 kit (Qiagen Inc., Valencia, CA, USA).
|
| Label |
Cy5
|
| Label protocol |
DNA was labeled according to the manufacturer’s instructions.
|
| |
|
| |
| Hybridization protocol |
aCGH was performed using Agilent SurePrint G3 Human CGH Microarray 4 x 180K arrays (Agilent Technologies Inc., Palo Alto, CA, USA).
|
| Scan protocol |
All slides were scanned with the Agilent DNA Microarray Scanner with Surescan High-Resolution technology and data extracted using the Agilent Feature Extraction Software v. 10.5.1.1 as described in the Agilent Oligo aCGH protocol.
|
| Data processing |
Genomic Workbench software (Agilent Technologies Inc.) was used with design file 022060.xml.
|
| |
|
| Submission date |
May 24, 2012 |
| Last update date |
Jan 20, 2013 |
| Contact name |
Francesca Micci |
| E-mail(s) |
francesca.micci@medisin.uio.no
|
| Organization name |
Oslo Universitetssykehus
|
| Department |
Institute for medical informatics
|
| Lab |
cancer cytogenetics
|
| Street address |
Ullernchausseen 70
|
| City |
oslo |
| ZIP/Postal code |
0310 |
| Country |
Norway |
| |
|
| Platform ID |
GPL10123 |
| Series (2) |
| GSE38229 |
aCGH was used to identify the overall genomic imbalances of SCC of the vulva in 14 patients |
| GSE38230 |
SCC of the vulva |
|
