ArticleNucleic acids research2011
Comprehensive computational design of mCreI homing endonuclease cleavage specificity for genome engineering.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
21 citing papers in PubMed.
- Human Genome Safe Harbor Sites: A Comprehensive Review of Criteria, Discovery, Features, and Applications.Cells · 2026Review
- Computational design of sequence-specific DNA-binding proteins.Nature structural & molecular biology · 2025Article
- Computation-Aided Engineering of Cytochrome P450 for the Production of Pravastatin.ACS catalysis · 2022Article
- Discovery and validation of human genomic safe harbor sites for gene and cell therapies.Cell reports methods · 2022Article
- New Human Chromosomal Sites with "Safe Harbor" Potential for Targeted Transgene Insertion.Human gene therapy · 2019Article
- Understanding the indirect DNA read-out specificity of I-CreI Meganuclease.Scientific reports · 2018Article
- Perpetuating the homing endonuclease life cycle: identification of mutations that modulate and change I-TevI cleavage preference.Nucleic acids research · 2016Article
- Article
- Progress and prospects of engineered sequence-specific DNA modulating technologies for the management of liver diseases.World journal of hepatology · 2015Review
- Efficient design of meganucleases using a machine learning approach.BMC bioinformatics · 2014Article
- Reprogramming homing endonuclease specificity through computational design and directed evolution.Nucleic acids research · 2014Article
- Homing endonucleases: from genetic anomalies to programmable genomic clippers.Methods in molecular biology (Clifton, N.J.) · 2014Review
- The developmental transcriptome of the mosquito Aedes aegypti, an invasive species and major arbovirus vector.G3 (Bethesda, Md.) · 2013Article
- Optimising homing endonuclease gene drive performance in a semi-refractory species: the Drosophila melanogaster experience.PloS one · 2013Article
- EENdb: a database and knowledge base of ZFNs and TALENs for endonuclease engineering.Nucleic acids research · 2013Article
- Targeted DNA mutagenesis for the cure of chronic viral infections.Journal of virology · 2012Review
- Non-specific protein-DNA interactions control I-CreI target binding and cleavage.Nucleic acids research · 2012Article
- Improved modeling of side-chain--base interactions and plasticity in protein--DNA interface design.Journal of molecular biology · 2012Article
- Comprehensive homing endonuclease target site specificity profiling reveals evolutionary constraints and enables genome engineering applications.Nucleic acids research · 2012Article
- Mining endonuclease cleavage determinants in genomic sequence data.The Journal of biological chemistry · 2011Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Homing endonucleases (HEs) cleave long (∼ 20 bp) DNA target sites with high site specificity to catalyze the lateral transfer of parasitic DNA elements. In order to determine whether comprehensive computational design could be used as a general strategy to engineer new HE target site specificities, we used RosettaDesign (RD) to generate 3200 different variants of the mCreI LAGLIDADG HE towards 16 different base pair positions in the 22 bp mCreI target site. Experimental verification of a range of these designs demonstrated that over 2/3 (24 of 35 designs, 69%) had the intended new site specificity, and that 14 of the 15 attempted specificity shifts (93%) were achieved. These results demonstrate the feasibility of using structure-based computational design to engineer HE variants with novel target site specificities to facilitate genome engineering.
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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.