|
| Status |
Public on Feb 05, 2022 |
| Title |
PAXF_2051_PDX |
| Sample type |
genomic |
| |
|
| Source name |
pancreatic cancer model 2051
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: pancreatic cancer
|
| Treatment protocol |
None
|
| Growth protocol |
Samples were grown in vivo.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted from snap frozen tumor xenografts.
|
| Label |
Biotin
|
| Label protocol |
As per manufacturer (Affymetrix).
|
| |
|
| Hybridization protocol |
Tumors were digested with proteinase K at 55°C overnight and the lysate was digested with DNase-free RNase (Qiagen). DNA was extracted with a mix of phenol:chloroform:isoamylalcohol and precipitated with ethanol. DNA pellets were washed and resuspended in TElow. The integrity of each DNA preparation was checked on a 1.3% agarose gel and the purity analyzed using NanoDrop 2000 (Thermo Scientific).
|
| Scan protocol |
Standard
|
| Description |
PICNIC value
|
| Data processing |
Copy number variations were calculated using Affymetrix GTC v4.1 and PICNIC software provided by the Cancer Genome Project from the Welcome Trust Sanger Institute. Copy numbers were then matched to gene locations.
Copy_Number_PICNIC_Scores.txt: Copy Number PICNIC Score per Gene and Sample.
|
| |
|
| Submission date |
Feb 04, 2022 |
| Last update date |
Feb 05, 2022 |
| Contact name |
Hagen Klett |
| E-mail(s) |
hagen.klett@crl.com
|
| Organization name |
Charles River Laboratories
|
| Department |
Discovery Services Freiburg
|
| Street address |
Am Flughafen 12
|
| City |
Freiburg |
| ZIP/Postal code |
79104 |
| Country |
Germany |
| |
|
| Platform ID |
GPL6801 |
| Series (1) |
| GSE196183 |
Affymetrix SNP Data array data of pancreatic cancer PDX models |
|
