|
| Status |
Public on Apr 26, 2022 |
| Title |
MN_T0_CRISPR |
| Sample type |
SRA |
| |
|
| Source name |
MLL-AF9; KrasG12D cell line
|
| Organism |
Mus musculus |
| Characteristics |
cell type: MN AML cells
treatment: Untreated
time point: 0 day
|
| Treatment protocol |
AG636 was refreshed every 2-3 days. 2 x 10^6 live cells was harvested at every time point.
|
| Growth protocol |
MN cells tumor cells were cultured in Anne-Kelso DMEM supplemented with 20% foetal calf serum, 0.1mM L-asparagine, 100 U/mL penicillin, 100 mg/mL streptomycin, 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 NextSeq 500 |
| |
|
| Description |
AG636_CRISPRscreenCounts_normalised.txt
|
| Data processing |
The RNA sequencing reads were trimmed using cutadapt (v1.16.5) to remove poor quality ends.
The resulting reads were aligned and statistical significance was calculated using MAGeCK algorithm (v0.5.8.1).
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: AG636_CRISPRscreenCounts_normalised.txt: Normalized count file representing number of reads per guide scored in T0, T10 and T24 samples.
|
| |
|
| Submission date |
Aug 08, 2021 |
| Last update date |
Apr 26, 2022 |
| Contact name |
Joan So |
| E-mail(s) |
[email protected]
|
| Organization name |
Peter MacCallum Cancer Centre
|
| Street address |
305 Grattan St
|
| City |
Melbourne |
| State/province |
Victoria |
| ZIP/Postal code |
3000 |
| Country |
Australia |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE181665 |
Inhibition of pyrimidine biosynthesis targets protein translation in AML [Targeted_CRISPR_screen] |
| GSE181666 |
Inhibition of pyrimidine biosynthesis targets protein translation in AML |
|
| Relations |
| BioSample |
SAMN20667419 |
| SRA |
SRX11672750 |
