An optimized NGS sample preparation protocol for in vitro CRISPR screens Journal Article
| Authors: | Wohlhieter, C. A.; Uddin, F.; Quintanal-Villalonga, À; Poirier, J. T.; Sen, T.; Rudin, C. M. |
| Article Title: | An optimized NGS sample preparation protocol for in vitro CRISPR screens |
| Abstract: | This standardized protocol describes the preparation of PCR amplified and purified samples from human cell lines passaged and collected from CRISPR screening. High-quality samples can be used to perform next-generation sequencing (NGS) to uncover changes in sgRNA abundance from the timepoint at which library-transduced cells are selected to the timepoint when the screen is ended. Here, we describe proper calculation methods for library representation and show how to overcome potential issues often encountered by researchers. © 2021 The Author(s) This standardized protocol describes the preparation of PCR amplified and purified samples from human cell lines passaged and collected from CRISPR screening. High-quality samples can be used to perform next-generation sequencing (NGS) to uncover changes in sgRNA abundance from the timepoint at which library-transduced cells are selected to the timepoint when the screen is ended. Here, we describe proper calculation methods for library representation and show how to overcome potential issues often encountered by researchers. For complete information on the use and execution of this protocol, please refer to Wohlhieter et al. (2020). © 2021 The Author(s) |
| Keywords: | high throughput screening; molecular biology; cancer; crispr |
| Journal Title: | STAR Protocols |
| Volume: | 2 |
| Issue: | 2 |
| ISSN: | 2666-1667 |
| Publisher: | Cell Press |
| Date Published: | 2021-06-18 |
| Start Page: | 100390 |
| Language: | English |
| DOI: | 10.1016/j.xpro.2021.100390 |
| PROVIDER: | scopus |
| PMCID: | PMC9680194 |
| DOI/URL: | |
| Notes: | Article -- Export Date: 1 April 2021 -- Source: Scopus |
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