ArticleFrontiers in microbiology2019
A Simple Criterion for Inferring CRISPR Array Direction.
Article in Frontiers in microbiology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- The complexity of multiple CRISPR arrays in strains with (co-occurring) CRISPR systems.microLife · 2026Article
- An evolutionary approach to predict the orientation of CRISPR arrays.PLoS computational biology · 2025Article
- CRISPR-GATE: a one-stop repository and guide to computational resources for genome editing experimentation.Briefings in bioinformatics · 2025Review
- Dynamics of CRISPR-mediated virus-host interactions in the human gut microbiome.The ISME journal · 2024Article
- Phages are unrecognized players in the ecology of the oral pathogen Porphyromonas gingivalis.Microbiome · 2023Article
- crRNA complementarity shifts endogenous CRISPR-Cas systems between transcriptional repression and DNA defense.RNA biology · 2021Article
- PAM-repeat associations and spacer selection preferences in single and co-occurring CRISPR-Cas systems.Genome biology · 2021Article
- Prophages are associated with extensive CRISPR-Cas auto-immunity.Nucleic acids research · 2020Article
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Authors and funding
5 authors.
Funding
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Abstract
Inferring transcriptional direction (orientation) of the CRISPR array is essential for many applications, including systematically investigating non-canonical CRISPR/Cas functions. The standard method, CRISPRDirection (embedded within CRISPRCasFinder), fails to predict the orientation (ND predictions) for ∼37% of the classified CRISPR arrays (>2200 loci); this goes up to >70% for the II-B subtype where non-canonical functions were first experimentally discovered. Alternatively, Potential Orientation (also embedded within CRISPRCasFinder), has a much smaller frequency of ND predictions but might have significantly lower accuracy. We propose a novel simple criterion, where the CRISPR array direction is assigned according to the direction of its associated
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