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- W4289780900 abstract "Assessing tumour gene fitness in physiologically-relevant model systems is challenging due to biological features of in vivo tumour regeneration, including extreme variations in single cell lineage progeny. Here we develop a reproducible, quantitative approach to pooled genetic perturbation in patient-derived xenografts (PDXs), by encoding single cell output from transplanted CRISPR-transduced cells in combination with a Bayesian hierarchical model. We apply this to 181 PDX transplants from 21 breast cancer patients. We show that uncertainty in fitness estimates depends critically on the number of transplant cell clones and the variability in clone sizes. We use a pathway-directed allelic series to characterize Notch signaling, and quantify TP53 / MDM2 drug-gene conditional fitness in outlier patients. We show that fitness outlier identification can be mirrored by pharmacological perturbation. Overall, we demonstrate that the gene fitness landscape in breast PDXs is dominated by inter-patient differences." @default.
- W4289780900 created "2022-08-04" @default.
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- W4289780900 date "2022-08-04" @default.
- W4289780900 modified "2023-09-30" @default.
- W4289780900 title "Accurate determination of CRISPR-mediated gene fitness in transplantable tumours" @default.
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- W4289780900 doi "https://doi.org/10.1038/s41467-022-31830-2" @default.
- W4289780900 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/35927228" @default.
- W4289780900 hasPublicationYear "2022" @default.
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