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2024A virally-encoded tRNA neutralizes the PARIS antiviral defence system., Nature 2024 Aug; (): .
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2024In situ targeted base editing of bacteria in the mouse gut., Nature 2024 Aug; 632(8026): 877-884.
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2024An antiplasmid system drives antibiotic resistance gene integration in carbapenemase-producing Escherichia coli lineages., Nat Commun 2024 May; 15(1): 4093.
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2024Type IV-A3 CRISPR-Cas systems drive inter-plasmid conflicts by acquiring spacers in trans., Cell Host Microbe 2024 May; (): .
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2024Systematic interrogation of CRISPR antimicrobials in Klebsiella pneumoniae reveals nuclease-, guide- and strain-dependent features influencing antimicrobial activity., Nucleic Acids Res 2024 Jun; 52(10): 6079-6091.
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2024Cassette recombination dynamics within chromosomal integrons are regulated by toxin-antitoxin systems., Science Advances , 2024, 10 (2), pp.eadj3498. ⟨10.1126/sciadv.adj3498⟩.
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2023Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment., PLoS Comput Biol 2023 Nov; 19(11): e1011621.
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2023Machine learning for evolutionary-based and physics-inspired protein design: Current and future synergies., Curr Opin Struct Biol 2023 Jun; 80(): 102571.
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2023Cas9 off-target binding to the promoter of bacterial genes leads to silencing and toxicity., Nucleic Acids Res 2023 Mar; (): .
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2022Phages and their satellites encode hotspots of antiviral systems., Cell Host Microbe 2022 May; 30(5): 740-753.e5.
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2021Improving sequence-based modeling of protein families using secondary structure quality assessment., Bioinformatics 2021 Jun; (): .
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2021Lipoprotein DolP supports proper folding of BamA in the bacterial outer membrane, promoting fitness upon envelope stress., Elife 2021 Apr; 10(): .
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2021The impact of genetic diversity on gene essentiality within the Escherichia coli species., Nat Microbiol 2021 03; 6(3): 301-312.
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2021Generating functional protein variants with variational autoencoders., PLoS Comput Biol 2021 Feb; 17(2): e1008736.
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2020Structure-specific DNA recombination sites: Design, validation, and machine learning–based refinement, Science Advances , 2020, 6 (30), pp.eaay2922. ⟨10.1126/sciadv.aay2922⟩.
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2020On-target activity predictions enable improved CRISPR-dCas9 screens in bacteria, Nucleic Acids Res. 2020 Apr;.
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2020Atypical organizations and epistatic interactions of CRISPRs and cas clusters in genomes and their mobile genetic elements, Nucleic Acids Res. 2020 Jan;48(2):748-760.
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2020Class-A penicillin binding proteins do not contribute to cell shape but repair cell-wall defects, eLife 2020;9:e51998.
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2019Gene silencing with CRISPRi in bacteria and optimization of dCas9 expression levels, Methods 2019 Aug;.
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2019Transpeptidase PBP2 governs initial localization and activity of major cell-wall synthesis machinery in Escherichia coli, BioRxiv (2019) 716407. doi:10.1101/716407..
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2019Editing the microbiome the CRISPR way, Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2019 May;374(1772):20180103.
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2019A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR-Cas systems in bacteria, Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2019 May;374(1772):20180088.
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2018Tuning dCas9’s ability to block transcription enables robust, noiseless knockdown of bacterial genes, Molecular Systems Biology (2018) 14, e7899.
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2017Using CRISPR-Cas systems as antimicrobials, Current Opinion in Microbiology 2017, 37:155–160.
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2017Mutations in Cas9 Enhance the Rate of Acquisition of Viral Spacer Sequences during the CRISPR-Cas Immune Response, Molecular Cell 65 (1), 168-175.
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2016A Eukaryotic-like Serine/Threonine Kinase Protects Staphylococci against Phages, Cell Host Microbe 2016 Sep;.
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2015Cas9 specifies functional viral targets during CRISPR-Cas adaptation, Nature 2015 Mar;519(7542):199-202.
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2014Exploiting CRISPR-Cas nucleases to produce sequence-specific antimicrobials, Nat. Biotechnol. 2014 Nov;32(11):1146-50.
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2014Conditional tolerance of temperate phages via transcription-dependent CRISPR-Cas targeting, Nature 2014 Oct;514(7524):633-7.
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2014The integron integrase efficiently prevents the melting effect of Escherichia coli single-stranded DNA-binding protein on folded attC sites., J Bacteriol 2014 Feb; 196(4): 762-71.
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2013Control of gene expression by CRISPR-Cas systems, F1000Prime Rep 2013;5:47.
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2013RNA-guided editing of bacterial genomes using CRISPR-Cas systems, Nat. Biotechnol. 2013 Mar;31(3):233-9.
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2010Cellular pathways controlling integron cassette site folding., EMBO J 2010 Aug; 29(15): 2623-34.
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2010The synthetic integron: an in vivo genetic shuffling device, Nucleic Acids Res. 2010 Aug;38(15):e153.
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