|
| Status |
Public on Dec 31, 2014 |
| Title |
Xenografted carcinoma |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Xenografted Carcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Human renal cell carcinoma xenografted into nude mice
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated using DNeasy MiniKit (Qiagen, France) according to the manufacturer’s protocol.
|
| Label |
Cy3
|
| Label protocol |
CGH labeling and hybridization were performed using high-density 244K arrays from Agilent Technologies, as recommended by the manufacturer. Genomic DNA (1µg) was double-digested with AluI and RsaI (Promega, Madison, WI) for 2 hours at 37°C. The digested DNAs were labeled with random primers using Agilent Genomic DNA Labeling Kit Plus for 2 hours at 37°C, according to the manufacturer’s instructions.
|
| |
|
| Channel 2 |
| Source name |
Universal Reference HAPMAP (Promega, USA, Madison)
|
| Organism |
Homo sapiens |
| Characteristics |
reference: Human Universal Reference HAPMAP (Promega, USA, Madison)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated using DNeasy MiniKit (Qiagen, France) according to the manufacturer’s protocol.
|
| Label |
Cy5
|
| Label protocol |
CGH labeling and hybridization were performed using high-density 244K arrays from Agilent Technologies, as recommended by the manufacturer. Genomic DNA (1µg) was double-digested with AluI and RsaI (Promega, Madison, WI) for 2 hours at 37°C. The digested DNAs were labeled with random primers using Agilent Genomic DNA Labeling Kit Plus for 2 hours at 37°C, according to the manufacturer’s instructions.
|
| |
|
| |
| Hybridization protocol |
Samples were mixed and hybridized with Human Cot I DNA (Invitrogen) at 65°C for 24 hours.
|
| Scan protocol |
Arrays were scanned with an Agilent DNA Microarray Scanner
|
| Data processing |
Log2 ratios were determined with Agilent Feature Extraction software (v 9.1.3.1) and the global quality of the individual microarrays used in the experiment was validated against the quality metrics (QCmetrics) of this software. Results were analyzed with Agilent’s Genomic Workbench Standard Edition 5.0.14
|
| |
|
| Submission date |
Oct 25, 2011 |
| Last update date |
Dec 31, 2014 |
| Contact name |
Anne Janin |
| E-mail(s) |
jean-paul.feugeas@sls.aphp.fr
|
| Phone |
+33142494012
|
| Organization name |
University Paris 7, INSERM, APHP
|
| Street address |
1 Av C Vellefaux
|
| City |
Paris |
| ZIP/Postal code |
75010 |
| Country |
France |
| |
|
| Platform ID |
GPL10123 |
| Series (1) |
| GSE32414 |
Hypoxia-induced stem-like cancer cells resistance to VEGFR inhibition |
|
