(1) D. Miyoshi and N. Sugimoto
Thermodynamic and Kinetic Analysis of Nucleic Acid Structures toward Pharmacogenomics. Current Pharmacogenomics, 3, 217-236 (2005).
(2) J. Matsui, K. Akamatsu, N. Hara, D. Miyoshi, H. Nawafune, K. Tamaki, and N. Sugimoto
An SPR Sensor Chip for Sensitive Detection of Small Molecules Using Molecularly Imprinted Polymer swith Embedded Gold Nanoparticle Anal. Chem., 77, 4282-4285 (2005).
(3) T. Ohmichi, Y. Kawamoto, P. Wu, D. Miyoshi, H. Karimata, and N. Sugimoto
DNA-Based Biosensor for Monitoring pH in Vitro and in Living Cells Biochemistry, 44, 7125-7130 (2005).
(4) D. Miyoshi, Z.-M. Wang, H. Karimata, and N. Sugimoto
DNA nanowire sensitive to the surrounding condition Nucleic Acids Symp. Ser., 49, 43-44 (2005).
(5) D. Miyoshi, H. Karimata, and N. Sugimoto
Drastic effect of a single base difference between human and tetrahymena telomere sequences on
their structures under molecular crowding conditions Angew. Chem. Int. Ed. , 44, 3740-3744 (2005).
(6) T. Yamauchi, D. Miyoshi, T. Kubodera, A. Nishimura, S. Nakai, and N. Sugimoto
Roles of Mg2+ in TPP-dependent riboswitch. FEBS Lett., 579, 2583-2588 (2005).
2006
(1) K. Akamatsu, M. Kimura, Y. Shibata, S. Nakano, D. Miyoshi, H. Nawafune, and N. Sugimoto
A DNA duplex with Extremely Enhanced Thermal Stability Based on Controlled Immobilization on Gold Nanoparticles Nano Lett., 6, 491-495 (2006).
(2) D. Miyoshi and N. Sugimoto
Use of the polymorphic nature of high-order DNA structures for the design of dynamic and functional
nanodevices Recent Devel. Nucleic Acids Res., 2, 49-70 (2006).
(3) Y. Sasaki, D. Miyoshi, and N. Sugimoto
Effect of molecular crowding on DNA polymerase activity Biotech. J., 1, 440-446 (2006).
(5) D. Miyoshi, H. Karimata, and N. Sugimoto
Hydration regulates thermodynamics of G-quadruplex formation under molecular crowding conditions
J. Am. Chem. Soc., 128, 7957-7963 (2006).
(6) D. Miyoshi, M. Inoue, and N. Sugimoto
DNA Logic Gates Based on Structural Polymorphism of Telomere DNA Molecules Responding to
Chemical Input Signals Angew. Chem. Int. Ed., 45, 7716-7719 (2006). Highlighted as the inside cover
(7) H.-Q. Yu, D. Miyoshi, and N. Sugimoto
Characterization of Structure and Stability of Long Telomeric DNA G-Quadruplexes J. Am. Chem. Soc., 128, 15461-15468 (2006).
(8) D. Miyoshi, H. Karimata, and N. Sugimoto
Factors regulating thermodynamic stability of DNA structures under molecular crowding conditions Nucleic Acids Symp. Ser., 50, 203-204 (2006).
(9) H.-Q. Yu, D. Miyoshi, and N. Sugimoto
Properties of long telomeric DNAs under cell-mimicking conditions Nucleic Acids Symp. Ser., 50, 207-208 (2006).
(10) M. Inoue, D. Miyoshi, and N. Sugimoto
Development of molecular logic gates using the structural switch of telomere DNAs Nucleic Acids Symp. Ser., 50, 315-316 (2006).
(11) J. Matsui, Y. Kamitakahara, J. Nagano, Y. Ono, S. Komai, D. Miyoshi, K. Tamaki, and
N. Sugimoto
Molecularly Imprinting within a Single Peptide Molecule for Synthesizing a Water-soluble ATP Receptor Proceedings of the International Conference of 43rd Japanese Peptide Symposium and 4th Peptide Engineering Meeting, 396-397.(2006).
(1) J. Matsui, S. Goji, T. Murashima, D. Miyoshi, S. Komai, A. Shigeyasu, T. Kushida, T. Miyazawa, T. Yamada, K. Tamaki, and N. Sugimoto
Molecular Imprinting Under Molecular Crowding Conditions: an Aid to the synthesis of a High-capacity Polymeric Sorbent for Triazine Herbicides Anal. Chem., 79, 1749-1757 (2007).
(2) D. Miyoshi, H. Karimata, Z.-M. Wang, K. Koumoto, and N. Sugimoto
Artificial G-wire Switch with 2,2’-Bipyridine Units Responsive to Divalent Metal Ions J. Am. Chem. Soc., 129, 5919-5925 (2007).
(3) Y. Sasaki, D. Miyoshi, and N. Sugimoto
Regulation of DNA nucleases by molecular crowding Nucleic Acids Res., 35, 4086-4093 (2007).
(4) D. Miyoshi, H. Karimata, and N. Sugimoto
Hydration regulates thermodynamic stability of DNA structures under molecular crowding conditions Nucleosides, Nucleotides and Nucleic Acids, 26, 589-595 (2007).
(7) H. Karimata, D. Miyoshi, T. Fujimoto, K. Koumoto, Z.-M. Wang, and N. Sugimoto
Conformational switch of a functional nanowire based on the DNA G-quadruplex Nucleic Acids Symp. Ser. (Oxf), 51, 251-252 (2007).
(8) K. Nakamura, H. Karimata, T. Ohmichi, D. Miyoshi, and N. Sugimoto
Effects of cosolutes on the thermodynamic stability of parallel DNA duplex and triplex. Nucleic Acids Symp. Ser. (Oxf), 51, 167-168 (2007).
(9) T. Murashima, K. Hayata, Y. Saiki, J. Matsui, D. Miyoshi, T. Yamada, T. Miyazawa, and
N. Sugimoto
Synthesis, structure and thermal stability of fully hydrophobic porphyrin-DNA conjugates Tetrahedron Lett., 48, 8514-8517 (2007).
(1) G. Song, C. Chen, X. Qu, D. Miyoshi, J. Ren, and N. Sugimoto
Small-molecule-directed assembly of DNA: a gold-nanoparticle-based strategy for screening of
a DNA duplex binders Adv. Mater., 20, 706-710 (2008).
(2) T. Yamauchi, D. Miyoshi, T. Kubodera, M. Ban, A. Nishimura, and
N. Sugimoto
Riboswitches for enhancing target gene expression in eukaryotes ChemBioChem, 9, 1040-1043 (2008).
(3) D. Miyoshi and N. Sugimoto
Molecular crowding effects on structure and stability of DNA Biochimie, 90, 1040-1051 (2008).
(4) T. Murashima, D. Sakiyama, D. Miyoshi, M. Kuriyama, T. Yamada, T. Miyazawa, and
N. Sugimoto
Cationic porphyrin induced a telomeric DNA to g-quadruplex form in water. Bioinorg Chem Appl., 294756 (2008).
(5) H.-Q Yu, D. -H. Zhang, X. -B. Gu, D. Miyoshi, and N. Sugimoto
Regulation of Telomerase Activity by the Thermodynamic Stability of a DNA x RNA Hybrid Angew. Chem. Int. Ed., 47, 9034-9038 (2008). Highlighted as the inside cover
(6) D. Miyoshi, K. Nakamura, S. Muhuri, H. T. Karimata, and N. Sugimoto
Thermodynamics of DNA structures under molecular crowding conditions with neutral and positive
charged cosolutes Nucleic Acids Symp. Ser., 52, 413-414 (2008).
(1) D. Miyoshi, K. Nakamura, H. T. Karimata, T. Ohmichi, and N. Sugimoto
Hydration of Watson-Crick Base Pairs and Dehydration of Hoogsteen Base Pairs Inducing Structural Polymorphism under Molecular Crowding Conditions J. Am. Chem. Soc., 131, 3522-3531 (2009).
(5) S. Muhuri, K. Mimura, D. Miyoshi, and N. Sugimoto
Stabilization of Three-Way Junctions of DNA under Molecular Crowding Conditions J. Am. Chem. Soc., 131, 9268-9280 (2009).
(7) J. Matsui, J. Nagano, D. Miyoshi, K. Tamaki, and N. Sugimoto
An Approach to Peptide-based ATP Receptors by a Combination of Random Selection, Rational Design, and Molecular Imprinting Biosens. Bioelectron., 25, 563-567 (2009).
(8) S. Fujii, K. Yagi, D. Miyoshi, H. Sakai, and N. Sugimoto
Cu(II) ion inhibits early stages of amyloid β fibril formation in vitro J. Biol. Inorg. Chem., Suppl.,1, S118 (2009).
(9) T. Fujimoto, D. Miyoshi, H. Tateishi-Karimata, and N. Sugimoto
Thermal stability and hydration state of DNA G-quadruplex regulated by loop regions. Nucleic Acids Symp. Ser. (Oxf), 53, 237-238 (2009).
(10) D. Miyoshi, S. Muhuri, K. Mimura, and N. Sugimoto
DNA junction structure stabilized by molecular crowding conditions Nucleic Acids Symp. Ser. (Oxf), 53, 59-60 (2009).
Biomolecular Design Lab. 