gscreend: modelling asymmetric count ratios in CRISPR screens to decrease experiment size and improv...
gscreend: modelling asymmetric count ratios in CRISPR screens to decrease experiment size and improve phenotype detection
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England: BioMed Central Ltd
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English
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England: BioMed Central Ltd
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Contents
Pooled CRISPR screens are a powerful tool to probe genotype-phenotype relationships at genome-wide scale. However, criteria for optimal design are missing, and it remains unclear how experimental parameters affect results. Here, we report that random decreases in gRNA abundance are more likely than increases due to bottle-neck effects during the cell proliferation phase. Failure to consider this asymmetry leads to loss of detection power. We provide a new statistical test that addresses this problem and improves hit detection at reduced experiment size. The method is implemented in the R package gscreend, which is available at
http://bioconductor.org/packages/gscreend
....
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gscreend: modelling asymmetric count ratios in CRISPR screens to decrease experiment size and improve phenotype detection
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TN_cdi_doaj_primary_oai_doaj_org_article_22b7f3cd2561477d867452d113a0957a
Permalink
https://devfeature-collection.sl.nsw.gov.au/record/TN_cdi_doaj_primary_oai_doaj_org_article_22b7f3cd2561477d867452d113a0957a
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ISSN
1474-760X,1474-7596
E-ISSN
1474-760X
DOI
10.1186/s13059-020-1939-1
