|
| Status |
Public on Feb 07, 2019 |
| Title |
CRISPRscreenTend |
| Sample type |
SRA |
| |
|
| Source name |
BcorΔE9-10KrasG12D cell line
|
| Organism |
Mus musculus |
| Characteristics |
cell line: Cas9+ cell line derived from Bcor{delta}E9-10KrasG12D mice
timepoint: Day 42
|
| Growth protocol |
Cas9+ BcorΔE9-10KrasG12D tumor cells were cultured in Anne Kelso media supplemented with 100 U/mL penicillin, 100 mg/mL streptomycin, 20% foetal calf serum, 0.1mM L-asparagine, 2 ng/mL IL-3, 2 ng/mL IL-6, 10 ng/mL SCF at 37°C and 10% CO2.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from cells using DNeasy Blood & Tissue Kit (Qiagen)
Sequencing libraries were prepared by nested PCR method to amplify integrated CRISPR guides.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
Tend
|
| Data processing |
The sequencing reads were trimmed using cutadapt(v1.7) to remove poor quality ends.
The resulting reads were aligned and statistical significance calculated with Mageck (v0.5.7)
Supplementary_files_format_and_content: normalized count file representing number of reads per guide scored in T0, T24 and T42 samples
|
| |
|
| Submission date |
Feb 06, 2019 |
| Last update date |
Feb 12, 2019 |
| Contact name |
Madison Kelly |
| E-mail(s) |
mjk4002@med.cornell.edu
|
| Organization name |
Weill Cornell Medicine
|
| Street address |
413 E69th Street
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL16417 |
| Series (2) |
| GSE126180 |
Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [TargetedCRISPRscreen] |
| GSE126264 |
Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis |
|
| Relations |
| BioSample |
SAMN10881524 |
| SRA |
SRX5342944 |
