Developing next-generation methods for scoring CRISPR screening data
2022-04
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Developing next-generation methods for scoring CRISPR screening data
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2022-04
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Mapping the genotype-to-phenotype connection is a central goal of modern biology. CRISPR screening technology powers mapping efforts by identifying relationships between gene knockouts and conditions of interest, such as another gene knockout or the presence of a drug. Quantitative readouts from CRISPR screening experiments, however, are confounded by several different types of biases which impact the efficacy of genotype-to-phenotype mapping efforts. My contributions to the scientific community consist of several computational tools which address bias in CRISPR screening experiments. The first, Orthrus, addresses biases specific to combinatorial screening experiments which knock out multiple genes simultaneously. The second, Orobas, presents an improved scoring method for chemogenomic screening experiments and substantially reduces false positives compared to the existing state-of-the-art method. Lastly, I detail a novel technique called onion normalization for reducing technical bias in large-scale CRISPR screening experiments. Overall, these contributions serve as a methodological bedrock for the construction of improved genotype-to-phenotype maps from CRISPR screening data.
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University of Minnesota Ph.D. dissertation. April 2022. Major: Biomedical Informatics and Computational Biology. Advisor: Chad Myers. 1 computer file (PDF); xi, 162 pages pages.
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Ward, Henry. (2022). Developing next-generation methods for scoring CRISPR screening data. Retrieved from the University Digital Conservancy, https://hdl.handle.net/11299/250429.
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