|
| Status |
Public on Sep 28, 2023 |
| Title |
GIMEN cells treated with Doxorubicin |
| Sample type |
SRA |
| |
|
| Source name |
Peripheral Nervous System
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Peripheral Nervous System
cell line: GIMEN-Cas9
cell type: Neuroblastoma
genotype: Cas9-positive
treatment: Doxorubicin
molecule type: gRNA
|
| Treatment protocol |
72H treatments
|
| Extracted molecule |
other |
| Extraction protocol |
sgRNAs for the human CRISPR KO library were first designed using CRISPick . The top 30 sgRNAs for each gene then underwent an additional round of filtering using in-house off-target analysis to identify highly unique sgRNAs. Up to 6 sgRNAs per gene were selected for the library along with non-targeting controls making up ~10% of the final library.
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Master_Processed_Data.csv
|
| Data processing |
CRISPR KO screens were analyzed using Mageck-Vispr/0.5.7
Supplementary files format and content: Mageck default output describing resulting RRA scores
|
| |
|
| Submission date |
Jan 29, 2023 |
| Last update date |
Sep 28, 2023 |
| Contact name |
William C. Wright |
| E-mail(s) |
charlie.wright@stjude.org
|
| Organization name |
St. Jude Children's Research Hospital
|
| Department |
Computational Biology
|
| Street address |
262 Danny Thomas Pl
|
| City |
Memphis |
| State/province |
Tennessee |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE223991 |
CRISPR Anchor screening of a barcoded library in cells treated with standard of care neuroblastoma drugs |
|
| Relations |
| BioSample |
SAMN32954515 |
| SRA |
SRX19211949 |
