|
| Status |
Public on Aug 31, 2017 |
| Title |
Patient Derived Xenograft Serial Passage 0 |
| Sample type |
genomic |
| |
|
| Source name |
Xenograft
|
| Organism |
Homo sapiens |
| Characteristics |
host strain: NOD/SCID mouse
tissue/cell type: Patient-derived xenograft
passage: passage 0
|
| Growth protocol |
Tumor growth was established in NOD/SCID mouse and tumors have been passaged serially
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated from tumor samples snap frozen in liquid nitrogen at the time of passaging. We used a Proteinase K/SDS buffer to dissociate the tissue (10 mM Tris-Cl (pH 8.0), 0.1 M EDTA (pH 8,0), 0.5% (w/v) SDS, 20mg/mL Proteinase K) overnight at 55°C. Protein extraction was achieved with Phenol-Chloroform-Isoamyl alcohol using phase lock centrifuge gels (5-Prime, Gaithersburg, USA) and DNA was precipitated with 100% ethanol and 7.5 M ammonium acetate. The pellet was washed with 75% ethanol and then dried.
|
| Label |
Biotin
|
| Label protocol |
As per manufacturer (Affymetrix)
|
| |
|
| Hybridization protocol |
Standard Affymetrix procedures
|
| Scan protocol |
Standard Affymetrix procedures
|
| Description |
PDX0
|
| Data processing |
Data was imported into Partek Genomic Suite using Partek defaults as allele specific intensity which was converted to copy number.
|
| |
|
| Submission date |
Aug 31, 2017 |
| Last update date |
Jan 23, 2018 |
| Contact name |
Marc Remke |
| E-mail(s) |
marc.remke@uks.eu
|
| Organization name |
Universitätsklinikum des Saarlandes
|
| Department |
Pediatric Translational Oncology Lab
|
| Street address |
Kirrberger Straße 100, Gebäude 9
|
| City |
Homburg (Saar) |
| State/province |
Saarland |
| ZIP/Postal code |
66421 |
| Country |
Germany |
| |
|
| Platform ID |
GPL6801 |
| Series (1) |
| GSE103342 |
Characterization of a clival chordoma xenograft model reveals inherent tumor genomic instability |
|
