Publications

Publication 2006-present​

  • Dwidar M, Yokobayashi Y. Controlling Bdellovibrio bacteriovorus Gene Expression and Predation Using Synthetic Riboswitches. ACS Synth Biol 2017; doi: 10.1021/acssynbio.7b0017. (PubMed / Journal (Open Access))

 

  • Kobori S, Takahashi K, Yokobayashi Y. Deep Sequencing Analysis of Aptazyme Variants Based on a Pistol Ribozyme. ACS Synth Biol 2017; 6: 1283–1288. (PubMed / Journal)

  • Kobori S, Yokobayashi Y. High-throughput Mutational Analysis of a Twister Ribozyme. Angew Chem Int Ed 2016; 55: 10354–10357. (PubMed / Journal (Open Access))

 

  • Nomura Y, Yokobayashi Y. Aptazyme-Based Riboswitches and Logic Gates in Mammalian Cells.Methods Mol Biol 2015; 1316: 141-148. (PubMed / Journal)
     
  • Kobori S, Nomura Y, Miu A, Yokobayashi Y. High-throughput assay and engineering of self-cleaving ribozymes by sequencing. Nucleic Acids Res 2015; 43: e85. (PubMed / Journal (Open Access))
     
  • Akter F, Yokobayashi Y. RNA Signal Amplifier Circuit with Integrated Fluorescence Output. ACS Synth Biol 2015; 4: 655-658. (PubMed / Journal)
     
  • Nomura Y, Yokobayashi Y. Dual Genetic Selection of Synthetic Riboswitches in Escherichia coli.Methods Mol Biol 2014; 1111: 131-140. (PubMed / Journal)
     
  • Sharma V, Yokobayashi Y. In Vivo Screening of Artificial Small RNAs for Silencing Endogenous Genes in Escherichia coli. Methods Mol Biol 2013; 1073: 75-84. (PubMed / Journal)
     
  • Nomura Y, Zhou L, Miu A, Yokobayashi Y. Controlling Mammalian Gene Expression by Allosteric Hepatitis Delta Virus Ribozymes. ACS Synth Biol 2013; 2: 684-689. (PubMed / Journal (Open Access))
     
  • Sharma V, Sakai Y, Smythe KA, Yokobayashi Y. Knockdown of recA gene expression by artificial small RNAs in Escherichia coliBiochem Biophys Res Commun 2013; 430: 256-259 (PubMed /Journal)
     
  • Nomura Y, Kumar D, Yokobayashi Y. Synthetic mammalian riboswitches based on guanine aptazyme.Chem Commun 2012; 48: 7215-7217. (PubMed / Journal)
     
  • Sharma V, Yamamura A, Yokobayashi Y. Engineering Artificial Small RNAs for Conditional Gene Silencing in Escherichia coliACS Synth Biol 2012; 1: 6-13. (PubMed / Journal)
     
  • Muranaka N, Sharma V, Yokobayashi Y. Enzymatic Probing Analysis of an Engineered Riboswitch Reveals Multiple OFF Conformations. Nucleosides, Nucleotides and Nucleic Acids 2011; 30: 696-705 (PubMed / Journal)
     
  • Kumar D, Kim SH, Yokobayashi Y. Combinatorially Inducible RNA Interference Triggered by Chemically Modified Oligonucleotides. J Am Chem Soc 2011; 133: 2783-2788. (PubMed / Journal /Free Download)
     
  • Nomura Y, Sharma V, Yamamura A, Yokobayashi Y. Selection of silk-binding peptides by phage display. Biotechnol Lett 2011; 33: 1069-1073. (PubMed / Journal (Open Access))
     
  • Muranaka N, Yokobayashi Y. A synthetic riboswitch with chemical band-pass response. Chem Commun 2010; 46: 6825-6827. (PubMed / Journal)
     
  • Muranaka N, Yokobayashi Y. Posttranscriptional Signal Integration of Engineered Riboswitches Yields Band-Pass Output. Angew Chem Int Ed 2010; 49: 4653-4655. (PubMed / Journal)
     
  • Tuleuova N, Jones CN, Yan J, Ramanculov E, Yokobayashi Y, Revzin A. Development of an Aptamer Beacon for Detection of Interferon-Gamma. Anal Chem 2010; 82: 1851-1857. (PubMed / Journal)
     
  • Kumar D, An CI, Yokobayashi Y. Conditional RNA Interference Mediated by Allosteric Ribozyme. J Am Chem Soc 2009; 131: 13906-13907. (PubMed / Journal / Free Download)
     
  • Muranaka N, Abe K, Yokobayashi Y. Mechanism-Guided Library Design and Dual Genetic Selection of Synthetic OFF Riboswitches. ChemBioChem 2009; 10: 2375-2381. (PubMed / Journal)
     
  • Muranaka N, Sharma V, Nomura Y, Yokobayashi Y. An efficient platform for genetic selection and screening of gene switches in Escherichia coli. Nucleic Acids Res 2009; 37: e39. (PubMed / Journal).
     
  • Muranaka N, Sharma V, Nomura Y, Yokobayashi Y. An efficient design strategy for whole-cell and cell-free biosensors based on engineered riboswitches. Anal Lett 2009; 42: 108-122. (Journal)
     
  • Sharma V, Nomura Y, Yokobayashi Y. Engineering complex riboswitch regulation by dual genetic selection. J Am Chem Soc 2008; 130: 16310-16315. (PubMed / Journal)
     
  • Tuleuova N, An CI, Ramanculov E, Revzin A, Yokobayashi Y. Modulating endogenous gene expression of mammalian cells via RNA-small molecule interaction. Biochem Biophys Res Commun2008; 376: 169-173. (PubMed / Journal)
     
  • Nomura Y, Yokobayashi Y. Reengineering a natural riboswitch by dual genetic selection. J Am Chem Soc 2007; 129: 13814-13815. (PubMed / Journal)
     
  • Yoshida W, Yokobayashi Y. Photonic boolean logic gates based on DNA aptamers. Chem Commun2007; 195-197. (PubMed / Journal / Commentary )
     
  • Nomura Y, Yokobayashi Y. Dual selection of a genetic switch by a single selection marker.BioSystems 2007; 90: 115-120. (PubMed / Journal)
     
  • An CI, Trinh VB, Yokobayashi Y. Artificial control of gene expression in mammalian cells by modulating RNA interference through aptamer-small molecule interaction. RNA 2006; 12: 710-716. (PubMed / Journal / Commentary )