Welcome to Chemical Biology Lab

We are interested in the chemical biology of nucleic acids. Using the tools of organic chemistry, molecular biology and physical chemistry, we explore the chemical principles underlying the recognition, reactivity and structure of nucleic acids. We certainly believe
that our group is one of the most active laboratories in the world. Please visit our Research
and Publication sections to learn more about our scientific activities. Also, you can see our
lab menbers and staff profiles to learn more about us!





  • 540. Structural Studies of a Complex of a CAG/CTG Repeat Sequence-specific Binding Molecule and A-A-mismatch-containing DNA.
    Abe, K.; Hirose, Y.; Kumagai, T.; Hashiya, K.; Hidaka, K.; Emura, T.; Bando, T.; Kazuki Takeda, K.; Sugiyama, H..
    JACS Au in press
  • 539. RNA G-quadruplex in the Functional Regulation of Non-coding RNA: Challenges and Emerging Opportunities.
    Sahayasheela, V. J.; Sugiyama H.
    Cell, Chem. Biol., 2024, 31, 53-70.
  • 538. Nucleic Acid Assembled Semiconducting Materials: Rational Design, Structure-property Modulation and Performance Evaluations.
    Bai, R.; Ziadlou, R.; Vaijayanthi, T.; Karthikeyan, S.; Chinnathambi, S.; Parthasarathy, A.; Cai, L.; Bruggen, M-C., Sugiyama, H.; Pandian, G. N.
    Allergy, in press
  • 537. Modulation of Excimer Formation and Photoexcitation Behaviour through DNA-Surfactant-dye Supramolecular Assembly.
    Bai, D.; Zhao, W.; Feng, H.; Sugiyama, H.
    Macromol. Mater. Eng., 2023, 2300329.
  • 536. Novel Auger-Electron emitting 191Pt-labeled Pyrrole–Imidazole Polyamide Targeting MYCN Increases Cytotoxicity and Cytosolic dsDNA Granules in MYCN-Amplified Neuroblastoma.
    Obata, H.; Atsushi B. Tsuji, B. A.; Sudo, H.; Sugyo A.; Hashiya K.; Ikeda, H.; Minegishi, K.; Nagatsu, K.; Ogawa, M.; Bando, T.; Sugiyama, H.; Zhang, M.-R.
    Pharmaceuticals (Basel) 2023, 16, 1526.
  • 535. Nucleic Acid Assembled Semiconducting Materials: Rational Design, Structure-property Modulation and Performance Evaluations.
    Bai, D.; Zhao, W.; Feng, H.; Sugiyama, H.
    APL Mater. 2023, 11, 100601.
  • 534. A Cyclic Pyrrole-imidazole Polyamide Reduces Pathogenic RNA in CAG/CTG Triplet Repeat Neurological Disease Models.
    Ikenoshita, S.; Matsuo, K.; Yabuki, Y.; Kawakubo, K.; Asamitsu, S.; Hori, K.; Usuki, S.; Hirose, Y.; Bando, T.; Araki, K.; Ueda, M.; Sugiyama, H.; Shioda, N.
    J. Clin. Invest. 2023, 133, e164792.
  • 533. Targeting Cis-regulatory Elements of FOXO Family is a Novel Therapeutic Strategy for Induction of Leukemia Cell Differentiation.
    Hirao, A.; Kurayoshi, K.; Takase, Y.; Ueno, M.; Ohta, K.; Fuse, K.; Ikeda, S.; Watanabe, T.; Nishida, Y.; Horike, S.; Hosomichi, K.; Tadokoro, Y.; Kobayashi, M.; Kasahara, A.; Jing, Y.; Shoulkamy, M.; Meguro-Horike, M.; Kojima, K.; Sugiyama, H.; Hiroki, N.; Tajima, A.; Ishikawa, Y.; Kiyoi, H.; Hirao, A.
    Cell Death & Disease 2023, 14, 642.
  • 532. DNA methylation modification patterns identify prognosis responses to immunotherapy and targeted therapy.
    Bai, D.; Yang, Z.; Cheng, Y.; Pandian, G. N.; Sugiyama, H.
    Frontiers in Bioscience-Landmark, 2023, 28, 224.
  • 531. Structural Expansion of Catalytic RNA Nanostructures Through Oligomerization of a Cyclic Trimer of Engineered Ribozymes.
    Siddika, M. A.; Oi, H.; Hidaka, K.; Sugiyama, H.; Endo, M.; Matsumura, S.; Ikawa, Y.
    Molecules, 2023, 28, 6465.
  • 530. Anticancer Activities of DNA-Alkylating Pyrrole−Imidazole Polyamide Analogs Targeting RUNX Transcription Factors against p53 Mutated Pancreatic Cancer PANC-1 Cells.
    Hirose, Y.; Sato, S.; Hashiya, K.; Bando, T.; Sugiyama, H.
    J. Med. Chem., 2023, 66, 12059-12068.
  • 529. Two-Dimensional DNA Origami Lattices Assembled on Lipid Bilayer Membranes.
    Suzuki, Y.; Sugiyama, H.; Endo, M.
    in: DNA and RNA Origami. Methods in Molecular Biology, vol 2639. 2023 Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3028-0_5
  • 528. Isothermal Self-assembly of Multicomponent and Evolutive DNA Nanostructures.
    Rossi-Gendron, C.; Fakih, F. E.; Bourdon, L.; Nakazawa, K.; Finkel, J.; Triomphe, N.; Chocron, L.; Endo, M.; Sugiyama, H.; Bellot, G.; Morel, M.; Rudiuk, S.; Baigl, D
    Nature Nanotechnology, 2023, 18, 1311-1318.
  • 527. AT-specific DNA Visualization Revisits the Directionality of Bacteriophage λ DNA Ejection.
    Bong S.; Park C. B.; Cho S.-G.; Bae, J.; Hapsari, N. D.; Jin, X.; Heo, S.; Lee, J.; Hashiya, K.; Bando, T.; Sugiyama, H.; Jung, K.-H.; Sung, B. J.; Jo, K.
    Nucleic Acids Research, 2023, 51, 5634-5646.
  • 526. Histidine-DNA Nanoarchitecture as Laccase Mimetic DNAzymes.
    Yum, J.; Kumagai, T.; Hori, D.; Suigyama, H.; Park, S.
    Nanoscale, 2023, https://doi.org/10.1039/D3NR01625K.
  • 525. Highly Fluorescent Isomorphic Nucleobase Analogs Based on the Thieno[3,4-d]-pyrimidine.
    Park, S.; Sugiyama, H.
    Photomed. Photobiol., 2023, 43-44, 29-43.
  • 524. Identification of Genes Responsible for the Social Skill in the Earthworm, Eudrilus Eugeniae.
    Lathakumari, S.; Seenipandian, S.; Balakrishnan, S.; Raj, A. P. M. S.; Sugiyama, H.; Pandian, G. N.; Sivasubramaniam, S.
    Gene Reports, 2023, 31, 101774 (1-19).
  • 523. Artificial Genetic Switches and DNA Origami: Current Landscape and Prospects as Designer Therapeutics and Visualization Tools.
    Pandian, G. N.; Mishra, S.; Sugiyama, H.
    in Handbook of Chemical Biology of Nucleic Acids, Eriks Rozners, Naoki Sugimoto, Ed. Springer Nature, in press
  • 522. Pyrrole-Imidazole Polyamides- A Frontrunner in Nucleic Acid-Based Small Molecule Drugs.
    Vaijayanthi, T.; Pandian, G. N.; Sugiyama, H.
    Advanced Therapeutics, 2023, 2300022 (1-8).
  • 521. Substitution to Hydrophobic Linker and Formation of Host–guest Complex Enhanced the Effect of Synthetic Transcription Factor.
    Hatanaka, J.; Hashiya, K.; Bando, T.; Sugiyama, H.
    Bioorg. Med. Chem., 2023, 81, 117208.
  • 520. Nanoparticle-Based Artificial Mitochondrial DNA Transcription Regulator: MitoScript.
    Yang, L.; Rathnam, C.; Hidaka, T.; Hou, Y.; Conklin, B.; Pandian, G. N.; Sugiyama, H.; Lee, K. B.
    Nano Letter, 2023, 23, 2046-2055.
  • 519. Thiophene-extended Fluorescent Nucleosides as Molecular Rotor-Type Fluorogenic Sensors for Biomolecular Interactions.
    Kumagai, T.; Kinoshita, B.; Hirashima, S.; Sugiyama, H.; Park, S.
    ACS Sensors, 2023, 8, 923-932.
  • 518. Evaluation by Experimentation and Simulation of a FRET Pair Comprising Fluorescent Nucleobase Analogs in Nucleosomes.
    Hirashima, S.; Park, S.; Sugiyama, H.
    Chem. Eur. J., 2023, e20220396 (1-8).
  • 517. Photocontrolled DNA Nanotubes as Stiffness Tunable Matrices for Controlling Cellular Behavior.
    Sethi, S.; Emura, T.; Hidaka, K.; Sugiyama, H.; Endo, M.
    Nanoscale, 2023, 15, 2904-2910.
  • 516. RNA G-quadruplex Organizes Stress Granule Assembly through DNAPTP6 in Neurons.
    Asamitsu, S.; Yabuki, Y.; Matsuo, K.; Kawasaki, M.; Hirose, Y.; Kashiwazaki, G.; Chandran, A.; Bando, T.; Wang, D. O.; Sugiyama, H.; Shioda, N.
    Science Advances, 2023, 9, eade2035 (1-15).
  • 515. Sequece-Specific Chromosomal DNA Binders: An Unfulfilled Promise?
    Yu, Z.; Pandian, G. N.; Sugiyama, H.
    Medicinal Chemistry and Chemical Biology: Drug Development and Clinical Applications, 2023, Chapter 5, 132-156.
  • 514. Mitochondria and G-quadruplex Evolution: An Intertwined Relationship
    Sahayasheela, V. J.; Yu, Z.; Hidaka, T.; Pandian, G. N.; Sugiyama, H.
    Trends in Genetics, 2023, 39, 15–30.


〒 606-8502
Department of Chemistry,
Graduate School of Science Kyoto University
Kitashirakawa-Oiwakecho, Sakyo-Ku, kyoto, Japan

TEL +81-75-753-4002
FAX +81-75-753-3670