CRISPR Screen Dataset
Akinci E (2022) - 5-CUSTOM00000017
Title: Elucidation of remdesivir cytotoxicity pathways through genome-wide CRISPR-Cas9 screening and transcriptomics
Screen Details:
- Screen Rationale : Increased/decreased resistance to drug
- Cell Type : Colonic Adenocarcinoma Cell Line [BTO:0001913]
- Cell Line : HT-29 [BTO:0000182, CELLOSAURUS:CVCL_0320]
- Phenotype : Response To Chemicals
- Condition : Remdesivir (1.67 µM) [ChEBI]
- Library : Brunello (human) [AddGene] | Type: CRISPRn | Format: Pool | Enzyme: Cas9 | Methodology: Knockout
- Analysis Method : MAGeCK-MLE | Number of Hits: 57 | Full Dataset Size: 19,114
- Experimental Setup : Drug Exposure | Duration: 14 Days | MOI: ~ 0.5
- Significance : Authors have indicated that results with Score.1 (Beta Score) < 0.0 AND Score.2 (FDR) < 0.01 OR Score.1 (Beta Score) > 0.0 AND Score.2 (FDR) < 0.01 are to be considered significant. These results are indicated by '' in the HIT column of the table below.
Notes:
- A CRISPR screen was carried out to identify affected genes in the remdesivir treated cells. The top gene hits with an FDR < 0.01 are noted. Negative beta scores indicate depleted genes and positive beta scores indicate enriched genes. Negative beta scores indicate genes whose knockout exacerbates HCQ toxicity (depleted in HCQ samples) and positive beta scores indicate genes whose knockout mitigates toxicity (enriched in HCQ samples).
Score Distribution
< 1.2312
> -1.1434