Cited by 145CRISPR and Genetic EngineeringRNA regulation and diseaseGenomics and Phylogenetic Studies

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Genome editing assessment using CRISPR Genome Analyzer (CRISPR-GA)

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Güell, Marc, Yang, Luhan, Church, George M.·2014·Bioinformatics

DOI 10.1093/bioinformatics/btu427PMC PMC4184265

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Abstract

Summary: Clustered regularly interspaced short palindromic repeats (CRISPR)-based technologies have revolutionized human genome engineering and opened countless possibilities to basic science, synthetic biology and gene therapy. Albeit the enormous potential of these tools, their performance is far from perfect. It is essential to perform a posterior careful analysis of the gene editing experiment. However, there are no computational tools for genome editing assessment yet, and current experimental tools lack sensitivity and flexibility. We present a platform to assess the quality of a genome editing experiment only with three mouse clicks. The method evaluates next-generation data to quantify and characterize insertions, deletions and homologous recombination. CRISPR Genome Analyzer provides a report for the locus selected, which includes a quantification of the edited site and the analysis of the different alterations detected. The platform maps the reads, estimates and locates insertions and deletions, computes the allele replacement efficiency and provides a report integrating all the information. Availability and implementation: CRISPR-GA Web is available at http://crispr-ga.net . Documentation on CRISPR-GA instructions can be found at http://crispr-ga.net/documentation.html Contact: mguell@genetics.med.harvard.edu

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Authors: Güell, M., Yang, L., & Church, G. M.
Affiliations: Harvard University (US)
Corresponding author: Church, George M.
ORCID: Güell, Marc
Yang, Luhan
Church, George M.
Venue: Bioinformatics
Publisher: Oxford University Press (OUP)
Published: 2014-07-01
Volume: 30
Issue: 20
Pages: 2968-2970
ISSN: 1367-4803 (ISSN-L)
1367-4811
DOI: 10.1093/bioinformatics/btu427
PMC: PMC4184265
OpenAlex: W2161871693
Semantic Scholar: 513d19c6d364f6a5d5c30c3a2edd41581cc2f9b0
Cited by: 142
References: 19
Citations by year: 2026: 1 · 2025: 8 · 2024: 9 · 2023: 11 · 2022: 11 · 2021: 16 · 2020: 18 · 2019: 13 · 2018: 16 · 2017: 11 · 2016: 13 · 2015: 8 · 2014: 7
FWCI: 5.33
Type: journal article
Language: en
Open access: bronze
doi.org
Locations: Bioinformatics (publishedVersion)
Europe PMC (PubMed Central) (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Funders: National Institutes of Health
National Human Genome Research Institute (P50HG005550, HG005550)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords: CRISPR gene editing, indels, homologous recombination, next-generation sequencing data analysis, web-based analysis tool
MeSH terms: Alleles, Genetic Engineering, Humans, User-Computer Interface, Genome, Human, Genomics, High-Throughput Nucleotide Sequencing, Clustered Regularly Interspaced Short Palindromic Repeats

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Genome editing assessment using CRISPR Genome Analyzer (CRISPR-GA)

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