ArticleInternational journal of biological sciences2018
CRISPRMatch: An Automatic Calculation and Visualization Tool for High-throughput CRISPR Genome-editing Data Analysis.
Article in International journal of biological sciences, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
46 citing papers in PubMed.
- Enhanced exonuclease-Cas9 systems promote multiple nucleotide deletions with higher efficiency and broader targeting scope in plants.Journal of integrative plant biology · 2026Article
- Boosting genome editing in perennial plants by CRISPR-Combo mediated morphogenic gene activation.Nature communications · 2026Article
- Transposase-Assisted Donor Tethering Boosts Large-Fragment HDR in Plants.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Structural and functional bases of F. rodentium Cas9 provide insights into CRISPR-Cas protein engineering.Cell genomics · 2026Article
- Transgene-free genome editing in citrus and poplar trees using positive and negative selection markers.Plant cell reports · 2025Article
- CRISPR-GATE: a one-stop repository and guide to computational resources for genome editing experimentation.Briefings in bioinformatics · 2025Review
- Enhancing biolistic plant transformation and genome editing with a flow guiding barrel.Nature communications · 2025Article
- Article
- A comprehensive all-in-one CRISPR toolbox for large-scale screens in plants.The Plant cell · 2025Article
- Enhanced Genome Editing Activity with Novel Chimeric ScCas9 Variants in Rice.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- PAM-relaxed and temperature-tolerant CRISPR-Mb3Cas12a single transcript unit systems for efficient singular and multiplexed genome editing in rice, maize, and tomato.Plant biotechnology journal · 2025Article
- Versatile plant genome engineering using anti-CRISPR-Cas12a systems.Science China. Life sciences · 2024Article
- Expanding plant genome editing scope and profiles with CRISPR-FrCas9 systems targeting palindromic TA sites.Plant biotechnology journal · 2024Article
- High performance TadA-8e derived cytosine and dual base editors with undetectable off-target effects in plants.Nature communications · 2024Article
- Genome editing in rice and tomato with a small Un1Cas12f1 nuclease.The plant genome · 2024Article
- CrisprStitch: Fast evaluation of the efficiency of CRISPR editing systems.Plant communications · 2024Article
- CRISPR/Cas9-gene editing approaches in plant breeding.GM crops & food · 2023Review
- Efficient plant genome engineering using a probiotic sourced CRISPR-Cas9 system.Nature communications · 2023Article
- A Digital PCR Method Based on Highly Specific Taq for Detecting Gene Editing and Mutations.International journal of molecular sciences · 2023Article
- CRISPR-Combo-mediated orthogonal genome editing and transcriptional activation for plant breeding.Nature protocols · 2023Review
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Custom-designed nucleases, including CRISPR-Cas9 and CRISPR-Cpf1, are widely used to realize the precise genome editing. The high-coverage, low-cost and quantifiability make high-throughput sequencing (NGS) to be an effective method to assess the efficiency of custom-designed nucleases. However, contrast to standardized transcriptome protocol, the NGS data lacks a user-friendly pipeline connecting different tools that can automatically calculate mutation, evaluate editing efficiency and realize in a more comprehensive dataset that can be visualized. Here, we have developed an automatic stand-alone toolkit based on python script, namely CRISPRMatch, to process the high-throughput genome-editing data of CRISPR nuclease transformed protoplasts by integrating analysis steps like mapping reads and normalizing reads count, calculating mutation frequency (deletion and insertion), evaluating efficiency and accuracy of genome-editing, and visualizing the results (tables and figures). Both of CRISPR-Cas9 and CRISPR-Cpf1 nucleases are supported by CRISPRMatch toolkit and the integrated code has been released on GitHub (https://github.com/zhangtaolab/CRISPRMatch).
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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.