ArticleGenome biology2020
gscreend: modelling asymmetric count ratios in CRISPR screens to decrease experiment size and improve phenotype detection.
Article in Genome biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Orobas: A computational approach for scoring and analysis of quantitative chemical-genetic interactions from CRISPR-Cas9 screens.STAR protocols · 2026Article
- Multiplexed perturbation enables scalable pooled screens.Nature methods · 2026Article
- simCRISPR: Modeling Experimental Complexity in Pooled CRISPR Screens.bioRxiv : the preprint server for biology · 2026Article
- Multidimensional analysis of host-virus interactions using the virus-encoded CRISPR-based direct readout system (VECOS).Nature protocols · 2026Review
- Docetaxel response in BRCA1,p53-deficient mammary tumor cells is affected by Huntingtin and BAP1.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Unlocking biological mechanisms with integrative functional genomics approaches.Molecules and cells · 2024Review
- G6PD and ACSL3 are synthetic lethal partners of NF2 in Schwann cells.Nature communications · 2024Article
- NPEPPS Is a Druggable Driver of Platinum Resistance.Cancer research · 2024Article
- Compact CRISPR genetic screens enabled by improved guide RNA library cloning.Genome biology · 2024Article
- acCRISPR: an activity-correction method for improving the accuracy of CRISPR screens.Communications biology · 2023Article
- Optimized metrics for orthogonal combinatorial CRISPR screens.Scientific reports · 2023Article
- New Target Gene Screening Using Shortened and Random sgRNA Libraries in Microbial CRISPR Interference.ACS synthetic biology · 2023Article
- Article
- Bioinformatics approaches to analyzing CRISPR screen data: from dropout screens to single-cell CRISPR screens.Quantitative biology (Beijing, China) · 2022Article
- CEDA: integrating gene expression data with CRISPR-pooled screen data identifies essential genes with higher expression.Bioinformatics (Oxford, England) · 2022Article
- A comprehensive Bioconductor ecosystem for the design of CRISPR guide RNAs across nucleases and technologies.Nature communications · 2022Article
- Multi-hallmark long noncoding RNA maps reveal non-small cell lung cancer vulnerabilities.Cell genomics · 2022Article
- Tutorial: design and execution of CRISPR in vivo screens.Nature protocols · 2022Review
- Metabolic balance in colorectal cancer is maintained by optimal Wnt signaling levels.Molecular systems biology · 2022Article
- High-content CRISPR screening.Nature reviews. Methods primers · 2022Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pooled CRISPR screens are a powerful tool to probe genotype-phenotype relationships at genome-wide scale. However, criteria for optimal design are missing, and it remains unclear how experimental parameters affect results. Here, we report that random decreases in gRNA abundance are more likely than increases due to bottle-neck effects during the cell proliferation phase. Failure to consider this asymmetry leads to loss of detection power. We provide a new statistical test that addresses this problem and improves hit detection at reduced experiment size. The method is implemented in the R package gscreend, which is available at http://bioconductor.org/packages/gscreend.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.