Now showing items 1-12 of 12

    • An affinity-based scoring scheme for predicting DNA-binding activities of modularly assembled zinc-finger proteins 

      Sander, Jeffry D; Zaback, Peter; Joung, Jae Keith; Voytas, Daniel F.; Dobbs, Drena (Oxford University Press, 2009)
      Zinc-finger proteins (ZFPs) have long been recognized for their potential to manipulate genetic information because they can be engineered to bind novel DNA targets. Individual zinc-finger domains (ZFDs) bind specific DNA ...
    • Efficient In Vivo Genome Editing Using RNA-Guided Nucleases 

      Hwang, Woong Y.; Fu, Yanfang; Reyon, Deepak; Maeder, Morgan L.; Tsai, Shengdar Q.; Sander, Jeffry D.; Peterson, Randall T.; Yeh, J.-R. Joanna; Joung, J. Keith (2013)
      Clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated (Cas) systems have evolved in bacteria and archaea as a defense mechanism to silence foreign nucleic acids of viruses and plasmids. Recent ...
    • Heritable and Precise Zebrafish Genome Editing Using a CRISPR-Cas System 

      Hwang, Woong Y.; Fu, Yanfang; Reyon, Deepak; Maeder, Morgan L.; Kaini, Prakriti; Sander, Jeffry D.; Joung, J. Keith; Peterson, Randall T.; Yeh, Jing-Ruey Joanna (Public Library of Science, 2013)
      We have previously reported a simple and customizable CRISPR (clustered regularly interspaced short palindromic repeats) RNA-guided Cas9 nuclease (RGN) system that can be used to efficiently and robustly introduce somatic ...
    • High frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells 

      Fu, Yanfang; Foden, Jennifer A.; Khayter, Cyd; Maeder, Morgan L.; Reyon, Deepak; Joung, J. Keith; Sander, Jeffry D. (2013)
      CRISPR RNA-guided endonucleases (RGENs) have rapidly emerged as a facile and efficient platform for genome editing. Here, we use a human cell-based reporter assay to characterize off-target cleavage of Cas9-based RGENs. ...
    • Highly Efficient Generation of Heritable Zebrafish Gene Mutations Using Homo- and Heterodimeric TALENs 

      Cade, Lindsay; Reyon, Deepak; Hwang, Woong Y.; Tsai, Shengdar; Patel, Samir; Khayter, Cyd; Joung, Jae Keith; Sander, Jeffry D; Peterson, Randall Theodore; Yeh, Jing-Ruey Joanna (Oxford University Press, 2012)
      Transcription activator-like effector nucleases (TALENs) are powerful new research tools that enable targeted gene disruption in a wide variety of model organisms. Recent work has shown that TALENs can induce mutations in ...
    • Improved Somatic Mutagenesis in Zebrafish Using Transcription Activator-Like Effector Nucleases (TALENs) 

      Moore, Finola Elizabeth; Reyon, Deepak; Sander, Jeffry D.; Martinez, Sarah A.; Blackburn, Jessica S.; Khayter, Cyd; Ramirez, Cherie Lynn; Joung, Jae Keith; Langenau, David M. (Public Library of Science, 2012)
      Zinc Finger Nucleases (ZFNs) made by Context-Dependent Assembly (CoDA) and Transcription Activator-Like Effector Nucleases (TALENs) provide robust and user-friendly technologies for efficiently inactivating genes in ...
    • In silico abstraction of zinc finger nuclease cleavage profiles reveals an expanded landscape of off-target sites 

      Sander, Jeffry D.; Ramirez, Cherie L.; Linder, Samantha J.; Pattanayak, Vikram; Shoresh, Noam; Ku, Manching; Foden, Jennifer A.; Reyon, Deepak; Bernstein, Bradley E.; Liu, David R.; Joung, J. Keith (Oxford University Press, 2013)
      Gene-editing nucleases enable targeted modification of DNA sequences in living cells, thereby facilitating efficient knockout and precise editing of endogenous loci. Engineered nucleases also have the potential to introduce ...
    • Rapid Mutation of Endogenous Zebrafish Genes Using Zinc Finger Nucleases Made by Oligomerized Pool ENgineering (OPEN) 

      Foley, Jonathan E.; Yeh, Jing-Ruey Joanna; Maeder, Morgan L.; Reyon, Deepak; Sander, Jeffry D; Peterson, Randall Theodore; Joung, Jae Keith (Public Library of Science, 2009)
      Background: Customized zinc finger nucleases (ZFNs) form the basis of a broadly applicable tool for highly efficient genome modification. ZFNs are artificial restriction endonucleases consisting of a non-specific nuclease ...
    • Robust, synergistic regulation of human gene expression using TALE activators 

      Maeder, Morgan L.; Linder, Samantha J.; Reyon, Deepak; Angstman, James F.; Fu, Yanfang; Sander, Jeffry D.; Joung, J. Keith (2013)
      Artificial transcription activator-like (TAL) effector-based activators (TALE activators) have broad utility but previous studies suggest that these monomeric proteins often possess low activities. Here we demonstrate that ...
    • Targeted Deletion and Inversion of Tandemly Arrayed Genes in Arabidopsis thaliana Using Zinc Finger Nucleases 

      Qi, Yiping; Li, Xiaohong; Zhang, Yong; Starker, Colby G.; Baltes, Nicholas J.; Zhang, Feng; Sander, Jeffry D.; Reyon, Deepak; Joung, J. Keith; Voytas, Daniel F. (Genetics Society of America, 2013)
      Tandemly arrayed genes (TAGs) or gene clusters are prevalent in higher eukaryotic genomes. For example, approximately 17% of genes are organized in tandem in the model plant Arabidopsis thaliana. The genetic redundancy ...
    • Zinc Finger Database (ZiFDB): A Repository for Information on C2H2 Zinc Fingers and Engineered Zinc-Finger Arrays 

      Fu, Fengli; Sander, Jeffry D; Maeder, Morgan; Thibodeau-Beganny, Stacey; Joung, Jae Keith; Dobbs, Drena; Miller, Leslie; Voytas, Daniel F. (Oxford University Press, 2009)
      Zinc fingers are the most abundant DNA-binding motifs encoded by eukaryotic genomes and one of the best understood DNA-recognition domains. Each zinc finger typically binds a 3-nt target sequence, and it is possible to ...
    • Zinc Finger Targeter (ZiFiT): An Engineered Zinc Finger/Target Site Design Tool 

      Sander, Jeffry D; Zaback, Peter; Joung, Jae Keith; Voytas, Daniel F.; Dobbs, Drena (Oxford University Press, 2007)
      Zinc Finger Targeter (ZiFiT) is a simple and intuitive web-based tool that facilitates the design of zinc finger proteins (ZFPs) that can bind to specific DNA sequences. The current version of ZiFiT is based on a widely ...