babinyurii / sgRNA-mismatch-activity

predicting sgRNA mismatch activity using keras

Predicting sgRNA mismatch activity using Keras

• based on the method described in the article: Jost, M., Santos, D.A., Saunders, R.A. et al. Titrating gene expression using libraries of systematically attenuated CRISPR guide RNAs. Nat Biotechnol 38, 355–364 (2020). https://doi.org/10.1038/s41587-019-0387-5

• the workflow described by the authors of the article

• the 'Table_S8_machine_learning_input.txt' which contains training dataset can be found in this repo's table folder

Comparison of measured and predicted activities measured by neural network. r^2 = 0.62 (in the article r^2 = 0.65)

some plots showing sgRNA activity prediction. The activity is changed due to mismatch type and position