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broadinstitute / cell-health

Predicting Cell Health with Morphological Profiles
MIT License
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How were guides selected? #29

Closed gwaybio closed 3 years ago

gwaybio commented 5 years ago

Efficacy of replicate correlation across guises could be inflated based on biased selection

gwaybio commented 3 years ago

From the methods section of the paper:

CRISPR constructs used for knockout We performed a clustered regularly interspersed short palindromic repeats (CRISPR) knockout experiment to perturb cells. We designed guides to target 59 different genes with an average of two guides per gene (Supplementary Table 1). All sgRNAs were selected from the Avana library (Doench et al., 2016; Meyers et al., 2017) or by using CRISPick (https://broad.io/crispick) (Hanna and Doench, 2020). Nevertheless, it is important to note that the identity of the CRISPR gene target is not used in training the machine learning models.