Agreement between two large pan-cancer CRISPR-Cas9 gene dependency data sets
書誌事項
- 公開日
- 2019-12-20
- 権利情報
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- https://creativecommons.org/licenses/by/4.0
- https://creativecommons.org/licenses/by/4.0
- DOI
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- 10.1038/s41467-019-13805-y
- 10.1101/604447
- 10.17863/cam.49746
- 公開者
- Springer Science and Business Media LLC
説明
<jats:title>Abstract</jats:title> <jats:p>Genome-scale CRISPR-Cas9 viability screens performed in cancer cell lines provide a systematic approach to identify cancer dependencies and new therapeutic targets. As multiple large-scale screens become available, a formal assessment of the reproducibility of these experiments becomes necessary. We analyze data from recently published pan-cancer CRISPR-Cas9 screens performed at the Broad and Sanger Institutes. Despite significant differences in experimental protocols and reagents, we find that the screen results are highly concordant across multiple metrics with both common and specific dependencies jointly identified across the two studies. Furthermore, robust biomarkers of gene dependency found in one data set are recovered in the other. Through further analysis and replication experiments at each institute, we show that batch effects are driven principally by two key experimental parameters: the reagent library and the assay length. These results indicate that the Broad and Sanger CRISPR-Cas9 viability screens yield robust and reproducible findings.</jats:p>
収録刊行物
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- Nature Communications
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Nature Communications 10 (1), 5817-, 2019-12-20
Springer Science and Business Media LLC
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キーワード
- Genes, Essential
- Science
- Gene Expression Profiling
- Q
- Datasets as Topic
- Reproducibility of Results
- Antineoplastic Agents
- Genomics
- Oncogenes
- Article
- Small Molecule Libraries
- Cell Line, Tumor
- Neoplasms
- Biomarkers, Tumor
- Humans
- Molecular Targeted Therapy
- CRISPR-Cas Systems
- Drug Screening Assays, Antitumor
- Precision Medicine