To CRISPR and beyond: the evolution of genome editing in stem cells.

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Published in Regen Med on December 01, 2016

Authors

Kuang-Yui Chen1,2,3, Paul S Knoepfler1,2,3

Author Affiliations

1: Department of Cell Biology and Human Anatomy, University of California Davis School of Medicine, Davis, CA, USA.
2: Institute of Pediatric Regenerative Medicine, Shriners Hospital For Children Northern California, Sacramento, CA, USA.
3: Genome Center, University of California Davis, Davis, CA, USA.

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Establishment in culture of pluripotential cells from mouse embryos. Nature (1981) 30.49

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Evolution and classification of the CRISPR-Cas systems. Nat Rev Microbiol (2011) 17.11

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Hybrid restriction enzymes: zinc finger fusions to Fok I cleavage domain. Proc Natl Acad Sci U S A (1996) 12.25

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Design and selection of novel Cys2His2 zinc finger proteins. Annu Rev Biochem (2001) 7.79

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AGO1 defines a novel locus of Arabidopsis controlling leaf development. EMBO J (1998) 5.62

Targeted integration in rat and mouse embryos with zinc-finger nucleases. Nat Biotechnol (2010) 5.60

Genetic transformation of mouse embryos by microinjection of purified DNA. Proc Natl Acad Sci U S A (1980) 5.47

Expression of a site-specific endonuclease stimulates homologous recombination in mammalian cells. Proc Natl Acad Sci U S A (1994) 5.37

FokI dimerization is required for DNA cleavage. Proc Natl Acad Sci U S A (1998) 5.31

Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isozyme conversion in Escherichia coli, and identification of the gene product. J Bacteriol (1987) 5.28

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Phenotypes of c-Myc-deficient rat fibroblasts isolated by targeted homologous recombination. Cell Growth Differ (1997) 5.14

Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells. Nat Biotechnol (2014) 5.07

Class-IIS restriction enzymes--a review. Gene (1991) 4.70

Orthogonal Cas9 proteins for RNA-guided gene regulation and editing. Nat Methods (2013) 4.61

A TALEN genome-editing system for generating human stem cell-based disease models. Cell Stem Cell (2012) 4.49

Germ line integration and Mendelian transmission of the exogenous Moloney leukemia virus. Proc Natl Acad Sci U S A (1976) 4.07

Computational redesign of endonuclease DNA binding and cleavage specificity. Nature (2006) 4.06

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Role of the ZWILLE gene in the regulation of central shoot meristem cell fate during Arabidopsis embryogenesis. EMBO J (1998) 4.04

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Targeted genome modification in mice using zinc-finger nucleases. Genetics (2010) 3.38

Site-specific recombinases: tools for genome engineering. Trends Genet (1993) 3.18

Rationally engineered Cas9 nucleases with improved specificity. Science (2015) 3.14

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New restriction endonucleases from Flavobacterium okeanokoites (FokI) and Micrococcus luteus (MluI). Gene (1981) 2.97

Genetic and physical analysis of double-strand break repair and recombination in Saccharomyces cerevisiae. Genetics (1989) 2.93

Site-specific recombination determined by I-SceI, a mitochondrial group I intron-encoded endonuclease expressed in the yeast nucleus. Genetics (1992) 2.92

CRISPR-Cas systems: Prokaryotes upgrade to adaptive immunity. Mol Cell (2014) 2.87

FokI requires two specific DNA sites for cleavage. J Mol Biol (2001) 2.83

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Increasing the efficiency of homology-directed repair for CRISPR-Cas9-induced precise gene editing in mammalian cells. Nat Biotechnol (2015) 2.77

Functional domains in Fok I restriction endonuclease. Proc Natl Acad Sci U S A (1992) 2.61

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TALE nucleases: tailored genome engineering made easy. Curr Opin Biotechnol (2012) 1.96

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Alteration of the cleavage distance of Fok I restriction endonuclease by insertion mutagenesis. Proc Natl Acad Sci U S A (1993) 1.87

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A mouse geneticist's practical guide to CRISPR applications. Genetics (2014) 1.81

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