https://github.com/broadinstitute/rs3_manuscript
Relevant code for Rule Set 3 manuscript
Science Score: 26.0%
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○CITATION.cff file
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○Scientific vocabulary similarity
Low similarity (6.0%) to scientific vocabulary
Repository
Relevant code for Rule Set 3 manuscript
Basic Info
- Host: GitHub
- Owner: broadinstitute
- Language: Jupyter Notebook
- Default Branch: main
- Size: 32.6 MB
Statistics
- Stars: 0
- Watchers: 4
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Small variations in tracrRNA sequence have a large effect on sgRNA activity
CRISPR technology is a powerful tool for studying genome function. To aid in picking sgRNAs that have maximal cutting efficacy, several groups have developed models that predict sgRNA on-target activity. While multiple tracrRNA variants are commonly used for screening, almost all existing models were trained to predict activity for one tracrRNA. Here we develop an on-target model that makes optimal predictions for multiple tracrRNA variants. We validate this model on a new dataset of sgRNAs tiling essential and non-essential genes. By analyzing the differences in sgRNA activity between tracrRNA variants, we show that Pol III transcription termination is a strong determinant of sgRNA activity. We expect these results to improve the performance of CRISPR screening and inform future research on tracrRNA engineering and sgRNA modeling.
All custom code used for analysis and example notebooks are available here.
Owner
- Name: Broad Institute
- Login: broadinstitute
- Kind: organization
- Location: Cambridge, MA
- Website: http://www.broadinstitute.org/
- Twitter: broadinstitute
- Repositories: 1,083
- Profile: https://github.com/broadinstitute
Broad Institute of MIT and Harvard
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