A benchmark of algorithms for the analysis of pooled CRISPR screens
| Autor: | Sunil Bodapati, Timothy Daley, Xueqiu Lin, James Zou, Lei S. Qi |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
lcsh:QH426-470
Review Biology CRISPR screen 03 medical and health sciences 0302 clinical medicine CRISPR Computer Simulation Computational analysis RNA Small Interfering CRISPR interference lcsh:QH301-705.5 030304 developmental biology 0303 health sciences CRISPR activation Screen algorithms Human genetics 3. Good health Benchmarking lcsh:Genetics lcsh:Biology (General) Benchmark (computing) CRISPR knockoout CRISPR-Cas Systems Algorithm Sequence Analysis 030217 neurology & neurosurgery Algorithms Simulation |
| Zdroj: | Genome Biology, Vol 21, Iss 1, Pp 1-13 (2020) Genome Biology |
| DOI: | 10.1186/s13059-020-01972-x |
| Popis: | Genome-wide pooled CRISPR-Cas-mediated knockout, activation, and repression screens are powerful tools for functional genomic investigations. Despite their increasing importance, there is currently little guidance on how to design and analyze CRISPR-pooled screens. Here, we provide a review of the commonly used algorithms in the computational analysis of pooled CRISPR screens. We develop a comprehensive simulation framework to benchmark and compare the performance of these algorithms using both synthetic and real datasets. Our findings inform parameter choices of CRISPR screens and provide guidance to researchers on the design and analysis of pooled CRISPR screens. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
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