Lysine linkage in abasic site-binding ligand–thiazole orange conjugates for improved binding affinity to orphan nucleobases in DNA/RNA hybrids

Yusuke Sato, Hiroki Saito, Daisuke Aoki, Norio Teramae and Seiichi Nishizawa

Chem. Commun., 2016, 52, 14446
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Highly selective binding of naphthyridine with a trifluoromethyl group to cytosine opposite an abasic site in DNA duplexes

Yusuke Sato, Yushuang Zhang, Takehiro Seino, Takashi Sugimoto, Seiichi Nishizawa and Norio Teramae

Org. Biomol. Chem., 2012, 10, 4003
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6,7-Dimethyllumazine as a potential ligand for selective recognition of adenine opposite an abasic site in DNA duplexes

Zhiqiang Ye, Burki Rajendar, Dai Qing, Seiichi Nishizawa and Norio Teramae

Chem. Commun., 2008, 6588
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Targeting abasic site-containing DNA with annelated quinolizinium derivatives: the influence of size, shape and substituents

Katja Benner, Heiko Ihmels, Sarah Kölsch and Phil M. Pithan

Org. Biomol. Chem., 2014, 12, 1725
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Label-free aptamer-based sensor using abasic site-containing DNA and a nucleobase-specific fluorescent ligand

Zhiai Xu, Kotaro Morita, Yusuke Sato, Qing Dai, Seiichi Nishizawa and Norio Teramae

Chem. Commun., 2009, 6445
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Triplex molecular beacons for sensitive recognition of melamine based on abasic-site-containing DNA and fluorescent silver nanoclusters

Ya Wang, Qianqian Sun, Linling Zhu, Junying Zhang, Fengyang Wang, Linlin Lu, Haijun Yu, Zhiai Xu and Wen Zhang

Chem. Commun., 2015, 51, 7958
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Interstrand cross-link of DNA by covalently linking a pair of abasic sites

Kohei Ichikawa, Naoshi Kojima, Yu Hirano, Toshie Takebayashi, Keiko Kowata and Yasuo Komatsu

Chem. Commun., 2012, 48, 2143
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Optical absorption in complexes of abasic DNA with noble-metal nanoclusters by first principles calculations

L. C. de Carvalho, O. J. Silveira, R. Longuinhos, R. W. Nunes and S. S. Alexandre

Phys. Chem. Chem. Phys., 2019, 21, 1260
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Alloxazine as a ligand for selective binding to adenine opposite AP sites in DNA duplexes and analysis of single-nucleotide polymorphisms

Burki Rajendar, Seiichi Nishizawa and Norio Teramae

Org. Biomol. Chem., 2008, 6, 670
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A new solvatochromic fluorophore for exploring nonpolar environments created by biopolymers

Abulfazl Fakhari M. and Steven E. Rokita

Chem. Commun., 2011, 47, 4222
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Simultaneous fluorescence light-up and selective multicolor nucleobase recognition based on sequence-dependent strong binding of berberine to DNA abasic site

Fei Wu, Yong Shao, Kun Ma, Qinghua Cui, Guiying Liu and Shujuan Xu

Org. Biomol. Chem., 2012, 10, 3300
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Fluorescence light-up recognition of DNA nucleotide based on selective abasic site binding of an excited-state intramolecular proton transfer probe

Shujuan Xu, Yong Shao, Kun Ma, Qinghua Cui, Guiying Liu, Fei Wu and Minjie Li

Analyst, 2011, 136, 4480
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Effect of substituents of alloxazine derivatives on the selectivity and affinity for adenine in AP-site-containing DNA duplexes

Burki Rajendar, Arivazhagan Rajendran, Zhiqiang Ye, Eriko Kanai, Yusuke Sato, Seiichi Nishizawa, Marek Sikorski and Norio Teramae

Org. Biomol. Chem., 2010, 8, 4949
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The effect of LNA nucleobases as enhancers for the binding of amiloride to an abasic site in DNA/DNA and DNA/RNA duplexes

Yusuke Sato, Tetsushi Sato, Takaya Sato, Seiichi Nishizawa and Norio Teramae

Org. Biomol. Chem., 2014, 12, 7250
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Ultrasensitive recognition of AP sites in DNA at the single-cell level: one molecular rotor sequentially self-regulated to form multiple different stable conformations

Beidou Feng, Kui Wang, Yonggang Yang, Ge Wang, Hua Zhang, Yufang Liu and Kai Jiang

Chem. Sci., 2019, 10, 10373
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Electrochemical SNPs detection using an abasic site-containing DNA on a gold electrode

Kotaro Morita, N. B. Sankaran, Weimin Huang, Takehiro Seino, Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Chem. Commun., 2006, 2376
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Ultrasensitive chemiluminescence quantification of single-nucleotide polymorphisms by using monobase-modified Au and CuS nanoparticles

Caifeng Ding, Zhenfeng Wang, Hua Zhong and Shusheng Zhang

Biosensors and Bioelectronics, 2010, 25, 1082
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Construction of Highly Reactive Probes for Abasic Site Detection by Introduction of an Aromatic and a Guanidine Residue into an Aminooxy Group

Naoshi Kojima, Toshie Takebayashi, Akiko Mikami, Eiko Ohtsuka and Yasuo Komatsu

J. Am. Chem. Soc., 2009, 131, 13208
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Effect of the bases flanking an abasic site on the recognition of nucleobase by amiloride

Arivazhagan Rajendran, Chunxia Zhao, Burki Rajendar, Viruthachalam Thiagarajan, Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Biochimica et Biophysica Acta (BBA) - General Subjects, 2010, 1800, 599
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Fluorescence Quenching Dynamics of 2-Amino-7-methyl-1,8-naphthyridine in Abasic-Site-Containing DNA Duplexes for Nucleobase Recognition

Chunfan Yang, Fang Wang, Qian Zhou, Jialong Jie and Hongmei Su

J. Phys. Chem. Lett., 2023, 14, 10585
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Luminescent materials incorporating pyrazine or quinoxaline moieties

Sylvain Achelle, Christine Baudequin and Nelly Plé

Dyes and Pigments, 2013, 98, 575
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Selective Stabilization of Abasic Site‐Containing DNA by Insertion of Sterically Demanding Biaryl Ligands

Katja Benner, Anna Bergen, Heiko Ihmels and Phil Marvin Pithan

Chemistry A European J, 2014, 20, 9883
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Strong and Selective Binding of Amiloride to an Abasic Site in RNA Duplexes: Thermodynamic Characterization and MicroRNA Detection

Yusuke Sato, Toshiki Ichihashi, Seiichi Nishizawa and Norio Teramae

Angew Chem Int Ed, 2012, 51, 6369
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Ultrasensitive Apurinic/Apyrimidinic Site-Specific Ratio Fluorescent Rotor for Real-Time Highly Selective Evaluation of mtDNA Oxidative Damage in Living Cells

Beidou Feng, Kui Wang, Junwei Liu, Guojiang Mao, Jingqiang Cui, Xiaopeng Xuan, Kai Jiang and Hua Zhang

Anal. Chem., 2019, 91, 13962
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Facile design of organic–inorganic hybrid gels for molecular recognition of nucleoside triphosphates

Jong-Hwan Jeon, Takahiro Kakuta, Kazuo Tanaka and Yoshiki Chujo

Bioorganic & Medicinal Chemistry Letters, 2015, 25, 2050
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Improvement of base selectivity and binding affinity by controlling hydrogen bonding motifs between nucleobases and isoxanthopterin: Application to the detection of T/C mutation

Burki Rajendar, Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Bioorganic & Medicinal Chemistry Letters, 2007, 17, 3682
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Effect of methyl substitution in a ligand on the selectivity and binding affinity for a nucleobase: A case study with isoxanthopterin and its derivatives

Burki Rajendar, Arivazhagan Rajendran, Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Bioorganic & Medicinal Chemistry, 2009, 17, 351
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Simultaneous recognition of nucleobase and sites of DNA damage: Effect of tethered cation on the binding affinity

Arivazhagan Rajendran, Viruthachalam Thiagarajan, Burki Rajendar, Seiichi Nishizawa and Norio Teramae

Biochimica et Biophysica Acta (BBA) - General Subjects, 2009, 1790, 95
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Influence of substituent modifications on the binding of 2-amino-1,8-naphthyridines to cytosine opposite an AP site in DNA duplexes: thermodynamic characterization

Yusuke Sato, Seiichi Nishizawa, Keitaro Yoshimoto, Takehiro Seino, Toshiki Ichihashi, Kotaro Morita and Norio Teramae

Nucleic Acids Research, 2009, 37, 1411
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Determination of amiloride using a ds-DNA-modified pencil graphite electrode based on guanine and adenine signals

E. Mirmomtaz, Ali A. Ensafi and S. Soleimanian-Zad

Electrochimica Acta, 2009, 54, 1141
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Determination of mutated genes in the presence of wild-type DNA by using molecular beacons as probe

Yonghua Zhang, Junjie Ai, Qiaorong Gu, Qiang Gao, Honglan Qi and Chengxiao Zhang

Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy, 2017, 174, 286
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DNA abasic site-directed formation of fluorescent silver nanoclusters for selective nucleobase recognition

Kun Ma, Qinghua Cui, Guiying Liu, Fei Wu, Shujuan Xu and Yong Shao

Nanotechnology, 2011, 22, 305502
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DNA Abasic Site-Selective Enhancement of Sanguinarine Fluorescence with a Large Emission Shift

Fei Wu, Yanwei Sun, Yong Shao, Shujuan Xu, Guiying Liu, Jian Peng, Lingling Liu and Nikolai Lebedev

PLoS ONE, 2012, 7, e48251
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Naphthyridine tetramer with a pre-organized structure for 1:1 binding to a CGG/CGG sequence

Chikara Dohno, Izumi Kohyama, Changfeng Hong and Kazuhiko Nakatani

Nucleic Acids Research, 2012, 40, 2771
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Molecular Design of Fluorogenic Probes for Targeting rRNA: Indicator in FID Assay and Dye for Imaging of Nucleolar RNA in Living Cells

Seiichi NISHIZAWA, En Ting Tabitha LEE, Yukina YOSHINO, Sayaka YAJIMA, Masafumi ROKUGAWA and Yusuke SATO

BUNSEKI KAGAKU, 2021, 70, 703
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Signal‐Off and Signal‐On Design for a Label‐Free Aptasensor Based on Target‐Induced Self‐Assembly and Abasic‐Site‐Binding Ligands

Zhiai Xu, Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Chemistry A European J, 2009, 15, 10375
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Strong and Selective Binding of Amiloride to an Abasic Site in RNA Duplexes: Thermodynamic Characterization and MicroRNA Detection

Yusuke Sato, Toshiki Ichihashi, Seiichi Nishizawa and Norio Teramae

Angewandte Chemie, 2012, 124, 6475
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Competitive Binding of Abasic Site-Binding Ligands and Masking Ligands to DNA Duplexes for the Analysis of Single-Base Mutation

Yusuke Sato, Tomoe Kageyama, Seiichi Nishizawa and Norio Teramae

ANAL. SCI., 2013, 29, 15
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Ligands for Abasic Site-containing DNA and their Use as Fluorescent Probes

Julika Schlosser and Heiko Ihmels

COS, 2023, 20, 96
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Label‐Free Molecular Beacon System Based on DNAs Containing Abasic Sites and Fluorescent Ligands That Bind Abasic Sites

Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Chemistry A European J, 2011, 17, 11650
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Enhancement in fluorescence response by a quencher for amiloride upon binding to thymine opposite an abasic site in a DNA duplex

Yusuke Sato, Jing Tian, Toshiki Ichihashi, Yuka Chinda, Zhiai Xu, Yuanfeng Pang, Seiichi Nishizawa and Norio Teramae

Analytica Chimica Acta, 2010, 675, 49
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Small-Molecule Binding at an Abasic Site of DNA: Strong Binding of Lumiflavin for Improved Recognition of Thymine-Related Single Nucleotide Polymorphisms

N. B. Sankaran, Yusuke Sato, Fuyuki Sato, Burki Rajendar, Kotaro Morita, Takehiro Seino, Seiichi Nishizawa and Norio Teramae

J. Phys. Chem. B, 2009, 113, 1522
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Exploring the interaction of guanidine ligands Amiloride, Rimeporide and Cariporide with DNA for understanding their role as inhibitors of Na+/H+ exchangers (NHEs): A spectroscopic and molecular docking investigation

Swati Chaudhary, Pankaj Kumar and Mahima Kaushik

International Journal of Biological Macromolecules, 2022, 213, 834
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Ratiometric Fluorescent Signaling of Small Molecule, Environmentally Sensitive Dye Conjugates for Detecting Single‐Base Mutations in DNA

Chun‐xia Wang, Yusuke Sato, Megumi Kudo, Seiichi Nishizawa and Norio Teramae

Chemistry A European J, 2012, 18, 9481
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Ag nanoclusters as probes for turn-on fluorescence recognition of TpG dinucleotide with a high selectivity

Jian Peng, Yong Shao, Lingling Liu, Lihua Zhang, Hua Liu and Ying Wang

Analytica Chimica Acta, 2014, 850, 78
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NBD‐Based Green Fluorescent Ligands for Typing of Thymine‐Related SNPs by Using an Abasic Site‐Containing Probe DNA

Viruthachalam Thiagarajan, Arivazhagan Rajendran , Hiroyuki Satake , Seiichi Nishizawa and Norio Teramae

ChemBioChem, 2010, 11, 94
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DNA‐Binding Small‐Ligand‐Immobilized Surface Plasmon Resonance Biosensor for Detecting Thymine‐Related Single‐Nucleotide Polymorphisms

Sara Miura, Seiichi Nishizawa, Akinori Suzuki, Yukiko Fujimoto, Katsuya Ono, Qiang Gao and Norio Teramae

Chemistry A European J, 2011, 17, 14104
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Recent Progress in Abasic Site-binding Small Molecules for Detecting Single-base Mutations in DNA

Seiichi Nishizawa, Yusuke Sato and Norio Teramae

ANAL. SCI., 2014, 30, 137
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Dynamic Covalent Template-Guided Screen for Nucleic Acid-Targeting Agents

Sarah B. Krueger and Steven C. Zimmerman

J. Med. Chem., 2022, 65, 12417
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Fluorescent aptasensors based on conformational adaptability of abasic site-containing aptamers in combination with abasic site-binding ligands

Zhiai Xu, Yusuke Sato, Seiichi Nishizawa and Norio Teramae

Biosensors and Bioelectronics, 2011, 26, 4733
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Abasic site-based DNA aptamers for analytical applications

Seiichi Nishizawa, Yusuke Sato, Zhiai Xu, Kotaro Morita, Minjie Li and Norio Teramae

Supramolecular Chemistry, 2010, 22, 467
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Competitive Assay for Theophylline Based on an Abasic Site‐Containing DNA Duplex Aptamer and a Fluorescent Ligand

Yusuke Sato, Yushuang Zhang, Seiichi Nishizawa, Takehiro Seino, Kodai Nakamura, Minjie Li and Norio Teramae

Chemistry A European J, 2012, 18, 12719
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Luminescence-based colorimetric discrimination of single-nucleotide transversions by the combined use of the derivatives of DOTA-conjugated naphthyridine and its terbium complex

Hiroshi Atsumi, Keitaro Yoshimoto, Shingo Saito, Moriya Ohkuma, Mizuo Maeda and Yukio Nagasaki

Tetrahedron Letters, 2009, 50, 2177
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