|
| Status |
Public on May 01, 2012 |
| Title |
Tumor DNA from skin tumor epithelium 3.2 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Tumor DNA from skin tumor epithelium
|
| Organism |
Mus musculus |
| Characteristics |
tissue type: Skin tumor
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Excised skin tumors were minced into small pieces and digested in 1% Collagenase I (Sigma; 37oC for 1 hour) for removal of stromal tissue. The resulting suspension was filtered through a 40mm mesh and epithelial fragments were used for DNA extraction, using a Wizard® Genomic DNA Purification Kit (Promega).
|
| Label |
Cy3
|
| Label protocol |
Tumor DNA samples were labelled with Cy3 and hybridized to Nimblegen mouse CGH arrays together with Cy5-labelled normal brain DNA extracted from the same mice.
|
| |
|
| Channel 2 |
| Source name |
Brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue type: Brain
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Excised skin tumors were minced into small pieces and digested in 1% Collagenase I (Sigma; 37oC for 1 hour) for removal of stromal tissue. The resulting suspension was filtered through a 40mm mesh and epithelial fragments were used for DNA extraction, using a Wizard® Genomic DNA Purification Kit (Promega).
|
| Label |
Cy5
|
| Label protocol |
Tumor DNA samples were labelled with Cy3 and hybridized to Nimblegen mouse CGH arrays together with Cy5-labelled normal brain DNA extracted from the same mice.
|
| |
|
| |
| Hybridization protocol |
Arrays contained 2.1 million probes across the whole genome based on the MM9 genome build. CGH was according to Nimblegen protocols
|
| Scan protocol |
Scanning with an Agilent G2565BA Microarray Scanner was followed by image
|
| Data processing |
Data were processed using Nimblescan software v.2.5.
|
| |
|
| Submission date |
Mar 13, 2012 |
| Last update date |
May 01, 2012 |
| Contact name |
Bing Hu |
| E-mail(s) |
bing.hu@unil.ch
|
| Organization name |
University of Lausanne
|
| Department |
Department of Biochemistry
|
| Street address |
Chemin des Boveresses 155
|
| City |
Epalinges |
| ZIP/Postal code |
CH-1066 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL11368 |
| Series (1) |
| GSE36464 |
Study on the genomic changes in ColIa2 Cre x RBP-Jkappa loxp/loxp mice |
|
