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Rational control of gene expressions by chemically regulating topologies of nucleic acid structures

Research Project

Project/Area Number 19H00928
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Review Section Medium-sized Section 37:Biomolecular chemistry and related fields
Research InstitutionKonan University

Principal Investigator

Sugimoto Naoki  甲南大学, 先端生命工学研究所, 教授 (60206430)

Co-Investigator(Kenkyū-buntansha) 建石 寿枝  甲南大学, 先端生命工学研究所, 准教授 (20593495)
高橋 俊太郎  甲南大学, 先端生命工学研究所, 准教授 (40456257)
遠藤 玉樹  甲南大学, 先端生命工学研究所, 准教授 (90550236)
Project Period (FY) 2019-04-01 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥46,020,000 (Direct Cost: ¥35,400,000、Indirect Cost: ¥10,620,000)
Fiscal Year 2021: ¥12,090,000 (Direct Cost: ¥9,300,000、Indirect Cost: ¥2,790,000)
Fiscal Year 2020: ¥11,570,000 (Direct Cost: ¥8,900,000、Indirect Cost: ¥2,670,000)
Fiscal Year 2019: ¥22,360,000 (Direct Cost: ¥17,200,000、Indirect Cost: ¥5,160,000)
Keywords分子環境 / 核酸構造 / トポロジー / 遺伝子発現制御 / 人工分子
Outline of Research at the Start

本研究では、核酸構造の幾何学的特徴が遺伝子発現に与える影響を化学的かつ定量的手法を用いて解明する。
1.核酸トポロジーによる遺伝子発現制御メカニズムを 【知る】
2.核酸トポロジーに起因する遺伝子発現の調節を分子レベルで 【見る】
3.細胞レベルで核酸トポロジーを化学的制御に 【活かす】
を段階的に遂行し、遺伝子発現制御に関する新たな概念として核酸構造の多次元性(Structural Multidimensionality of Polynucleotides; SMPs)を提唱する。さらに、細胞内の遺伝子発現に関する調節機構の解明と、その知見を活用した画期的な化学的遺伝子発現制御技術を確立する。

Outline of Final Research Achievements

In this research project, gene regulation mechanisms based on nucleic acid structures, whose topological properties dynamically fluctuate depending on the molecular environment in cells, were investigated through quantitative analyses of their structures and stabilities. Physicochemical factors that affect the structures and stabilities of nucleic acids have been elucidated under molecular crowding conditions. Correlations between the nucleic acid structures and their functions to modulate gene expressions were also investigated. Furthermore, the construction of artificial molecules was demonstrated to apply to the regulation of nucleic acid functions based on the modulation of the dynamics and stabilities of their structures. The results of this research project are expected to provide great advances in not only the academic chemistry and biology of nucleic acids but also in a wide range of applied fields such as therapeutic, diagnostic, and medicinal applications.

Academic Significance and Societal Importance of the Research Achievements

本研究課題では、分子クラウディング環境を中心に、核酸の分子内、分子間での相互作用を定量的に解析してエネルギーレベルのデータベースを蓄積した。本研究で蓄積したデータベースは、核酸トポロジーの細胞内における分子挙動の予測に有用であり、基礎学術的に非常に価値の高いものである。核酸分子の異常な構造変化は、癌や神経変性疾患、生活習慣病などの原因となる可能性も指摘されつつある。それ故、研究成果として、人工分子を用いての核酸機能の化学的な制御が可能であることを実証したことで、医療、診断、創薬など、実社会に貢献する幅広い応用分野への研究展開が期待される。

Report

(5 results)
  • 2021 Annual Research Report   Final Research Report ( PDF )
  • 2020 Annual Research Report
  • 2019 Comments on the Screening Results   Annual Research Report
  • Research Products

    (118 results)

All 2022 2021 2020 2019 Other

All Int'l Joint Research (10 results) Journal Article (32 results) (of which Int'l Joint Research: 12 results,  Peer Reviewed: 31 results,  Open Access: 20 results) Presentation (72 results) (of which Int'l Joint Research: 25 results,  Invited: 16 results) Book (1 results) Remarks (3 results)

  • [Int'l Joint Research] ニューヨーク州立大学ビンガムトン校(米国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] レディング大学(英国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] 国立NMRセンター(スロベニア)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] コルカタ大学(インド)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] 中山大学(中国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] 長春中医薬大学(中国)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] National Institute of Chemistry(スロベニア)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] KU Leuven(ベルギー)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] University of Calcutta(インド)

    • Related Report
      2019 Annual Research Report
  • [Int'l Joint Research] Changchun University of Chinese Medicine(中国)

    • Related Report
      2019 Annual Research Report
  • [Journal Article] Dielectricity of a molecularly crowded solution accelerates NTP misincorporation during RNA-dependent RNA polymerization by T7 RNA polymerase2022

    • Author(s)
      S. Takahashi, S. Matsumoto, P. Chilka, S. Ghosh, H. Okura, and N. Sugimoto
    • Journal Title

      Sci. Rep.

      Volume: 12 Issue: 1 Pages: 1149-1149

    • DOI

      10.1038/s41598-022-05136-8

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Ruthenium Polypyridyl Complex Bound to a Unimolecular Chair-Form G-Quadruplex2022

    • Author(s)
      K. T. McQuaid, S. Takahashi, L. Baumgaertner, D. J. Cardin, N. G. Paterson, J. P. Hall, N. Sugimoto, and C. J. Cardin
    • Journal Title

      J. Am. Chem. Soc.

      Volume: 144 Issue: 13 Pages: 5956-5964

    • DOI

      10.1021/jacs.2c00178

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Replication Control of Human Telomere G-Quadruplex DNA by G-Quadruplex Ligands Dependent on Solution Environment2022

    • Author(s)
      S. Takahashi, S. Bhowmik, S. Sato, S. Takenaka, and N. Sugimoto
    • Journal Title

      Life

      Volume: 12 Issue: 4 Pages: 533-533

    • DOI

      10.3390/life12040553

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Chemical Modulation of DNA Replication along G-Quadruplex Based on Topology-Dependent Ligand Binding2021

    • Author(s)
      S. Takahashi, A. Kotar, H. Tateishi-Karimata, S. Bhowmik, Z.-F. Wang, T.-C. Chang, S, Sato, S. Takenaka, J. Plavec, and N. Sugimoto
    • Journal Title

      J. Am. Chem. Soc.

      Volume: 143 Issue: 40 Pages: 16458-16469

    • DOI

      10.1021/jacs.1c05468

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Effect of DNA modifications on the transition bet and non-canoncial DNA stransures in CpG islands during senescence2021

    • Author(s)
      S. Matsumoto, H. Tateishi-Karimata, T. Ohyama, and N. Sugimoto
    • Journal Title

      RSC Adv.

      Volume: 11 Issue: 59 Pages: 37205-37217

    • DOI

      10.1039/d1ra07201c

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Intramolecular G-quadruplex-hairpin loop structure competition of a GC-rich exon region in the TMPRSS2 gene2021

    • Author(s)
      W. Sugimoto, N. Kinoshita, M. Nakata, T. Ohyama, H. Tateishi-Karimata, T. Nishikata, N. Sugimoto, D. Miyoshi, and K. Kawauchi
    • Journal Title

      Chem. Commun.

      Volume: 58 Issue: 1 Pages: 48-51

    • DOI

      10.1039/d1cc05523b

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Triple-Helical Binding of Peptide Nucleic Acid Inhibits Maturation of Endogenous MicroRNA-1972021

    • Author(s)
      Endoh Tamaki、Brodyagin Nikita、Hnedzko Dziyana、Sugimoto Naoki、Rozners Eriks
    • Journal Title

      ACS Chemical Biology

      Volume: 16 Issue: 7 Pages: 1147-1151

    • DOI

      10.1021/acschembio.1c00133

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Transcriptome screening followed by integrated physicochemical and structural analyses for investigating RNA-mediated berberine activity2021

    • Author(s)
      Satpathi Sagar、Endoh Tamaki、Podbevsek Peter、Plavec Janez、Sugimoto Naoki
    • Journal Title

      Nucleic Acids Research

      Volume: 49 Issue: 15 Pages: 8449-8461

    • DOI

      10.1093/nar/gkab189

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Watson-Crick versus Hoogsteen Base Pairs: Chemical Strategy to Encode and Express Genetic Information in Life2021

    • Author(s)
      Takahashi Shuntaro、Sugimoto Naoki
    • Journal Title

      Accounts of Chemical Research

      Volume: 54 Issue: 9 Pages: 2110-2120

    • DOI

      10.1021/acs.accounts.0c00734

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] New Insights into the Functions of Nucleic Acids Controlled by Cellular Microenvironments2021

    • Author(s)
      Matsumoto Saki、Sugimoto Naoki
    • Journal Title

      Topics in Current Chemistry

      Volume: 379 Issue: 3 Pages: 17-17

    • DOI

      10.1007/s41061-021-00329-7

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Chemical Biology of Double Helical and Non-Double Helical Nucleic Acids: “To <i>B</i> or Not To <i>B</i>, That Is the Question”2021

    • Author(s)
      Sugimoto Naoki、Endoh Tamaki、Takahashi Shuntaro、Tateishi-Karimata Hisae
    • Journal Title

      Bulletin of the Chemical Society of Japan

      Volume: 94 Issue: 7 Pages: 1970-1998

    • DOI

      10.1246/bcsj.20210131

    • NAID

      130008076882

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] PartⅡ研究最前線, 14章 遺伝子発現における核酸の新機能2021

    • Author(s)
      松本 咲, 杉本 直己
    • Journal Title

      CSJカレントレビュー「進化を続ける核酸化学―ゲノム編集、非二重らせん、核酸医薬―」

      Volume: 41 Pages: 146-154

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] PartⅠ基礎概念と研究現場, 2章 細胞内の核酸物理化学2021

    • Author(s)
      高橋 俊太郎, 杉本 直己
    • Journal Title

      CSJカレントレビュー「進化を続ける核酸化学―ゲノム編集、非二重らせん、核酸医薬―」

      Volume: 41 Pages: 14-21

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 第1章フロントランナーに聞く「令和の時代も進化を続ける核酸化学」2021

    • Author(s)
      神谷 真子、建石 寿枝、永 次史、山吉 麻子、杉本 直己
    • Journal Title

      CSJカレントレビュー「進化を続ける核酸化学―ゲノム編集、非二重+RC[-1]+RC

      Volume: 41 Pages: 2-13

    • Related Report
      2021 Annual Research Report
  • [Journal Article] Nearest-neighbor parameters for predicting DNA duplex stability in diverse molecular crowding conditions2020

    • Author(s)
      S. Ghosh, S. Takahashi, T. Ohyama, T. Endoh, H. Tateishi-Karimata, and N. Sugimoto
    • Journal Title

      Proc. Natl. Acad. Sci. USA.

      Volume: 117 Issue: 25 Pages: 14194-14201

    • DOI

      10.1073/pnas.1920886117

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Improved nearest-neighbor parameters for the stability of RNA/DNA hybrids under a physiological condition2020

    • Author(s)
      D. Banerjee, H. Tateishi-Karimata, T. Ohyama, S. Ghosh, T. Endoh, S. Takahashi, and N. Sugimoto
    • Journal Title

      Nucleic Acids Res.

      Volume: 48 Issue: 21 Pages: 12042-12054

    • DOI

      10.1093/nar/gkaa572

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Thrombin binding aptamer G-quadruplex stabilized by pyrene-modified nucleotides2020

    • Author(s)
      Kovacic Matic、Podbevsek Peter、Tateishi-Karimata Hisae、Takahashi Shuntaro、Sugimoto Naoki、Plavec Janez
    • Journal Title

      Nucleic Acids Research

      Volume: 48 Issue: 7 Pages: 3975-3986

    • DOI

      10.1093/nar/gkaa118

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] RNA G-Quadruplexes Facilitate RNA Accumulation in G-Rich Repeat Expansions2020

    • Author(s)
      Teng Ye、Tateishi-Karimata Hisae、Sugimoto Naoki
    • Journal Title

      Biochemistry

      Volume: 59 Issue: 21 Pages: 1961-2040

    • DOI

      10.1021/acs.biochem.0c00130

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Molecular crowding induces primer extension by RNA polymerase through base stacking beyond Watson-Crick rules2020

    • Author(s)
      S. Takahashi, H. Okura, P. Chilika, S. Ghosh, and N. Sugimoto
    • Journal Title

      RSC Adv.

      Volume: 10 Issue: 55 Pages: 33052-33058

    • DOI

      10.1039/d0ra06502a

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Effect of Molecular Crowding on DNA Polymerase Reactions along Unnatural DNA Templates2020

    • Author(s)
      S. Takahashi, P. Herdwijn, and N. Sugimoto
    • Journal Title

      Molecules

      Volume: 25 Issue: 18 Pages: 4120-4120

    • DOI

      10.3390/molecules25184120

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Effects of Modifying Thioflavin T at the N3-Position on Its G4 Binding and Fluorescence Emission2020

    • Author(s)
      Y. Kataoka, H. Fujita, T. Endoh, N. Sugimoto, and M. Kuwahara
    • Journal Title

      Molecules

      Volume: 25 Issue: 21 Pages: 4936-4936

    • DOI

      10.3390/molecules25214936

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Stability prediction of canonical and non-canonical structures of nucleic acids in various molecular environments and cells2020

    • Author(s)
      S. Takahashi and N. Sugimoto
    • Journal Title

      Chem. Soc. Rev.

      Volume: 49 Issue: 23 Pages: 8439-8468

    • DOI

      10.1039/d0cs00594k

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Preferential targeting cancer-related i-motif DNAs by the plant flavonol fisetin for theranostics applications2020

    • Author(s)
      Takahashi Shuntaro、Bhattacharjee Snehasish、Ghosh Saptarshi、Sugimoto Naoki、Bhowmik Sudipta
    • Journal Title

      Scientific Reports

      Volume: 10 Issue: 1 Pages: 2504-2504

    • DOI

      10.1038/s41598-020-59343-2

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Effect of Potassium Concentration on Triplex Stability under Molecular Crowding Conditions2020

    • Author(s)
      Teng Ye、Tateishi-Karimata Hisae、Ohyama Tatsuya、Sugimoto Naoki
    • Journal Title

      Molecules

      Volume: 25 Issue: 2 Pages: 387-387

    • DOI

      10.3390/molecules25020387

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] New Modified Deoxythymine with Dibranched Tetraethylene Glycol Stabilizes G-quadruplex Structures2020

    • Author(s)
      H. Tateishi-Karimata, T. Ohyama, T. Muraoka, S. Tanaka, K. Kinbara, and N. Sugimoto
    • Journal Title

      Molecules

      Volume: 25 Issue: 3 Pages: 705-705

    • DOI

      10.3390/molecules25030705

    • NAID

      120006811187

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Hydroxyl groups in cosolutes regulate the G-quadruplex topology of telomeric DNA2020

    • Author(s)
      Tateishi-Karimata Hisae、Banerjee Dipanwita、Ohyama Tatsuya、Matsumoto Saki、Miyoshi Daisuke、Nakano Shu-ich、Sugimoto Naoki
    • Journal Title

      Biochemical and Biophysical Research Communications

      Volume: 525 Issue: 1 Pages: 177-183

    • DOI

      10.1016/j.bbrc.2020.02.045

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Validation of the nearest-neighbor model for Watson?Crick self-complementary DNA duplexes in molecular crowding condition2019

    • Author(s)
      Ghosh Saptarshi、Takahashi Shuntaro、Endoh Tamaki、Tateishi-Karimata Hisae、Hazra Soumitra、Sugimoto Naoki
    • Journal Title

      Nucleic Acids Research

      Volume: 47 Issue: 7 Pages: 0-0

    • DOI

      10.1093/nar/gkz071

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] RNA-Capturing Microsphere Particles (R-CAMPs) for Optimization of Functional Aptamers2019

    • Author(s)
      Endoh Tamaki、Ohyama Tatsuya、Sugimoto Naoki
    • Journal Title

      Small

      Volume: 15 Issue: 26 Pages: 1805062-1805062

    • DOI

      10.1002/smll.201805062

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Conformational Dynamics of the RNA G-Quadruplex and its Effect on Translation Efficiency2019

    • Author(s)
      Endoh Tamaki、Sugimoto Naoki
    • Journal Title

      Molecules

      Volume: 24 Issue: 8 Pages: 1613-1613

    • DOI

      10.3390/molecules24081613

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Stabilization of DNA loop structures by large cations2019

    • Author(s)
      S. Nakano, T. Ayusawa, Y. Tanino, and N. Sugimoto
    • Journal Title

      J. Phys. Chem. B

      Volume: 123 Issue: 36 Pages: 7687-7694

    • DOI

      10.1021/acs.jpcb.9b06074

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] In situ condensation of an anti-cancer drug into fibrin gel enabling effective inhibition of tumor cell growth2019

    • Author(s)
      Kuwahara Masayasu、Fujita Hiroto、Kataoka Yuka、Nakajima Yasuyo、Yamada Masanobu、Sugimoto Naoki
    • Journal Title

      Chemical Communications

      Volume: 55 Issue: 78 Pages: 11679-11682

    • DOI

      10.1039/c9cc06418d

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Quantitative Analysis of Stall of Replicating DNA Polymerase by G-Quadruplex Formation2019

    • Author(s)
      Takahashi Shuntaro、Sugimoto Naoki
    • Journal Title

      Methods in Molecular Biology

      Volume: 2035 Pages: 257-274

    • DOI

      10.1007/978-1-4939-9666-7_15

    • ISBN
      9781493996650, 9781493996667
    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Presentation] 脱ワトソン・クリックの核酸化学 (77):高圧環境がDNA非二重らせん構造に与える影響2022

    • Author(s)
      大山 達也, 高橋 俊太郎, 建石 寿枝, 田中 成典, 杉本 直己
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (80) : Validation of the nearest-neighbor model for Watson-Crick RNA duplexes under molecular crowding condition2022

    • Author(s)
      S. Ghosh, S. Takahashi, T. Ohyama, T. Endoh, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (79) : Application of the nearest-neighbor model for the stability prediction of intramolecular i-motif DNAs2022

    • Author(s)
      P. Chilka, S. Takahashi, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (76) : Structure-based Derivatization of Berberine to Improve the Potency for Targeting RNA Structures2022

    • Author(s)
      S. Satpathi, T. Endoh, Y. Chen, S. Matsumoto, T. Ohyama, P. Podbevsek, J. Plavec, K. Onizuka, F. Nagatsugi, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (73):Effect of G-quadruplex stability change on transcriptional repression in cancer cells2022

    • Author(s)
      H. Tateishi-Karimata, K. Kawauchi, T. Ohyama, H. Masaki, A. Natsume, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (74): Effect of DNA modifications on the transition between canonical and non-canonical DNA structures in CpG island2022

    • Author(s)
      S. Matsumoto, H. Tateishi-Karimata, T. Ohyama, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (78) : Analysis of structural dynamics of c-Myc G-quadruplex DNA using high pressure2022

    • Author(s)
      S. Takahashi, T. Ohyama, S.-B. Chen, J.-H. Tan, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (75): Development of RNA-ligand pairs for multicolor RNA imaging in cells2022

    • Author(s)
      T. Endoh, J.-H. Tan, S.-B. Chen, N. Sugimoto
    • Organizer
      日本化学会第102回春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Mg2+イオンによるグアニン四重鎖DNAの構造ダイナミクス制御2021

    • Author(s)
      高橋俊太郎, 杉本直己
    • Organizer
      第70回高分子討論会
    • Related Report
      2021 Annual Research Report
  • [Presentation] トポロジー依存的なリガンド結合でグアニン四重鎖のDNA複製を制御する2021

    • Author(s)
      高橋俊太郎, 建石寿枝, 佐藤しのぶ, 竹中繁織, J. Plavec, 杉本直己
    • Organizer
      第15回バイオ関連化学シンポジウム
    • Related Report
      2021 Annual Research Report
  • [Presentation] 神経変性疾患に係るリピートRNAとペプチドの相互作用解析2021

    • Author(s)
      建石寿枝, 大山達也, 田中成典, 杉本直己
    • Organizer
      第15回バイオ関連化学シンポジウム
    • Related Report
      2021 Annual Research Report
  • [Presentation] 非天然塩基含有PNAによる三重らせん構造を介したmiRNAの成熟阻害2021

    • Author(s)
      遠藤玉樹, N. Brodyagin, D. Hnedzko, E. Rozners, 杉本直己
    • Organizer
      第15回バイオ関連化学シンポジウム
    • Related Report
      2021 Annual Research Report
  • [Presentation] 高圧力を用いたRNAグアニン四重らせん構造の水和特性の解析2021

    • Author(s)
      高橋俊太郎, 松本咲, 杉本直己
    • Organizer
      第62回高圧討論会
    • Related Report
      2021 Annual Research Report
  • [Presentation] 細胞内での核酸の挙動を明らかにする熱力学解析2021

    • Author(s)
      高橋俊太郎
    • Organizer
      第57回熱測定討論会
    • Related Report
      2021 Annual Research Report
    • Invited
  • [Presentation] Roles of G-quadruplexes in cancer cells on multi-dimensional response genome2021

    • Author(s)
      H.Tateishi-Karimata
    • Organizer
      G4 webinar series Round VI
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Hydration parameters in nearest-neighbor model enables stability prediction for compositionally biased DNA duplexes in molecular crowding conditions2021

    • Author(s)
      S. Ghosh, S. Takahashi, N. Sugimoto
    • Organizer
      第48回国際核酸化学シンポジウム
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Application of nearest-neighbor model to the stability prediction of i-motif DNAs2021

    • Author(s)
      P. Chilka, S. Takahashi, N. Sugimoto
    • Organizer
      第48回国際核酸化学シンポジウム
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Changes in the atomic-level behavior of G-quadruplex under high pressure conditions2021

    • Author(s)
      T. Ohyama, H. Tateishi-Karimata, S. Takahashi, N. Sugimoto
    • Organizer
      第48回国際核酸化学シンポジウム
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] G-quadruplex formation in cancer cells with different expression level of ion channels2021

    • Author(s)
      H. Tateishi-Karimata, N. Sugimoto
    • Organizer
      第48回国際核酸化学シンポジウム
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Triplex-forming peptide nucleic acid inhibits maturation of endogenous miRNA2021

    • Author(s)
      T. Endoh, N. Brodyagin, D. Hnedzko, E. Rozners, N. Sugimoto
    • Organizer
      第48回国際核酸化学シンポジウム
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Chemical modulation of DNA replication by topology- dependent ligand binding on guanine quadruplexes2021

    • Author(s)
      S. Takahashi, A. Kotar, H. Tateishi-Karimata, S. Bhowmik, Zi-Fu Wang, Ta-Chau Chang, S. Sato, S. Takenaka, J. Plavec, N. Sugimoto
    • Organizer
      第48回国際核酸化学シンポジウム
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Structure-based derivatization of berberine to improve the potency for targeting RNA structures2021

    • Author(s)
      S. Satpathi, T. Endoh, Y. Chen, S. Matsumoto, T. Ohyama, P. Podbevsek, J. Plavec, K. Onizuka, F. Nagatsugi, N. Sugimoto
    • Organizer
      第21回東北大学多元物質科学研究所研究発表会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Effect of DNA modifications on the changes of DNA structure in CpG islands2021

    • Author(s)
      S. Matsumoto, H. Tateishi-Karimata, O. Tatsuya, N. Sugimoto
    • Organizer
      ICCAES 2021
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Roles of non-canonical DNA structures in cancer cells on mechanism of dimensional response genome2021

    • Author(s)
      H. Tateishi-Karimata, N. Sugimoto
    • Organizer
      ICCAES 2021
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Regulation transcription by DNA structures responsive chemical stimulus in cells2021

    • Author(s)
      H. Tateishi-Karimata, K. Kawauchi, N. Sugimoto
    • Organizer
      Pacifichem2021
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 脱ワトソン・クリックの核酸化学(65): ベルベリンによるRNAバルジ構造の認識および安定化の微視的解析2021

    • Author(s)
      遠藤玉樹, SATPATHI Sagar, 大山達也, PODBEVSEK Peter, PLAVEC Janez, 杉本直己
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 脱ワトソン・クリックの核酸化学(66): 非天然DNAの複製反応に及ぼす分子クラウディングの影響2021

    • Author(s)
      高橋俊太郎, HERDWIJN Piet, 杉本直己
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 脱ワトソン・クリックの核酸化学(67): DNA四重らせん構造と転写変異に及ぼすがんの悪性進行に伴う細胞内環境変化の影響2021

    • Author(s)
      建石寿枝, 川内敬子, 大山達也, 杉本直己
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 脱ワトソン・クリックの核酸化学(68): 老化における細胞内環境変化によるCpGアイランドのグアニン四重らせん構造のトポロジー制御2021

    • Author(s)
      松本咲, 大山達也, 杉本 直己
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] ワトソン・クリックの核酸化学(69): 神経変性疾患に関連するRNA四重鎖ジペプチドリピートの分子シミュレーションによる相互作用の解析2021

    • Author(s)
      大山達也, 建石寿枝, 田中成典, 杉本直己
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond Watson-Crick Double Helix (70): Prediction of DNA duplex stability having biased base composition under molecular crowding conditions2021

    • Author(s)
      Saptarshi Ghosh, Shuntaro Takahashi, Naoki Sugimoto
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Nucleic Acid Chemistry beyond Watson-Crick Double Helix (71): I-motif stability prediction under molecular crowding conditions2021

    • Author(s)
      Pallavi Chilka, Shuntaro Takahashi, Naoki Sugimoto
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (72): Prediction of RNA/DNA hybrid stability under a physiological condition and verification of advantage in CRISPR-Cas92021

    • Author(s)
      Dipanwita Banerjee, Hisae Tateishi-Karimata, Tatsuya Ohyama, Marko Trajkovski, Maria Toplishek, Janez Plavec, Naoki Sugimoto
    • Organizer
      日本化学会第101回春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] フラボノイドによるi-motif DNAの配列選択的な構造変化2020

    • Author(s)
      高橋俊太郎, BHOWMIK Sudipta, 杉本直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] 神経変性疾患に関わるリピートRNAによる相分離機構の解析2020

    • Author(s)
      建石寿枝, TENG Ye, 大山達也, 田中成典, 杉本直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] バルジを含むRNA二重鎖と天然アルカロイドとの相互作用解析2020

    • Author(s)
      遠藤 玉樹, SATPATHI Sagar, PODBEVSEK Peter, PLAVEC Janes, 杉本 直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] 異なるGカルテット数とループ長を有するRNAグアニン四重らせんの安定性への分子クラウディングの効果2020

    • Author(s)
      松本咲, 建石寿枝, 高橋俊太郎, 大山達也, 杉本直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] Stability prediction of DNA duplexes available under diverse molecular crowding conditions2020

    • Author(s)
      GHOSH Saptarshi, 高橋俊太郎, 大山達也, 遠藤玉樹, 建石寿枝, 杉本直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] Development of the prediction method for stability of RNA/DNA hybrids under a physiological condition2020

    • Author(s)
      BANERJEE Dipanwita, 建石寿枝, 大山達也, GHOSH Saptarshi, 遠藤玉樹, 高橋俊太郎, 杉本直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] Empirical rule of i-motif stability regulated by different molecular crowding conditions2020

    • Author(s)
      PALLAVI Chilka, 高橋俊太郎,杉本直己
    • Organizer
      第14回バイオ関連化学シンポジウム
    • Related Report
      2020 Annual Research Report
  • [Presentation] 局所的な細胞内環境における核酸構造の安定性を探る2020

    • Author(s)
      高橋俊太郎, GHOSH Saptarshi, 杉本直己
    • Organizer
      第69回高分子討論会
    • Related Report
      2020 Annual Research Report
  • [Presentation] cMyc遺伝子のグアニン四重らせんに対する圧力効果とその生物学的意義2020

    • Author(s)
      高橋俊太郎, 杉本直己
    • Organizer
      第61回高圧討論会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (57): Parameters for prediction of DNA duplex stabilities under the crowding conditions2020

    • Author(s)
      GHOSH, Saptarshi, S.Takahashi, T. Ohyama, T. Endo, H. Tateishi-Karimata, N.Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (58): The effect of molecular crowding on the stability of RNA G-quadruplexes with various number of quartets and loops2020

    • Author(s)
      S. Matsumoto, H. Tateishi-Karimata, S. Takahashi, N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (59): Prediction method for the stability of RNA/DNA hybrid duplex under a physiological condition2020

    • Author(s)
      D. Banerjee, H. Tateishi-Karimata, T. Ohyama, M. Tranjkovski, M. Toplishek, S. Takahashi, T. Endoh, J. Plavec, N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (60): Interaction analyses between natural alkaloids and RNAs with different structure motifs2020

    • Author(s)
      T. Endoh, S. Satpathi, N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (61): Effect of neighboring base pairs of cytosine bulge on berberine Induced RNA stabilization2020

    • Author(s)
      S. Satpathi, T. Endoh, N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (62): Transformation of selective i-motif DNAs induced by flavonoid2020

    • Author(s)
      S. Takahashi, S. Bhowmic, N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] 脱ワトソン・クリックの核酸化学 (63):分子シュミレーションによるGGGGCCリピートのRNA四重鎖とジペプチドリピートの集積メカニズムの解析2020

    • Author(s)
      大山達也, 建石寿枝, 田中成典, 杉本直己
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Nucleic Acids Chemistry beyond the Watson-Crick Double Helix (64): Effects of malignant alteration in cancer cells on the DNA structures and transcript mutations2020

    • Author(s)
      H. Tateishi-Karimata, K. Kawauchi, T. Ohyama, N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Chemistry of non-double helix nucleic acids in molecular crowding2020

    • Author(s)
      N. Sugimoto
    • Organizer
      日本化学会第100回春季年会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Functions of Non-canonical Nucleic Acids (2)2019

    • Author(s)
      N. Sugimoto
    • Organizer
      International Workshop“Trends in Nucleic Acid (TINA) 2019
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA四重らせん構造はがんの悪性化を制御しているのか2019

    • Author(s)
      建石寿枝, 杉本直己
    • Organizer
      第22回生命化学研究会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] The Watson-Crick World Is Not Enough2019

    • Author(s)
      N. Sugimoto
    • Organizer
      Gordon Research Conference (Nucleosides, Nucleotides and Oligonucleotides)
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] To B or Not to B : The Watson-Crick world is not enough2019

    • Author(s)
      N. Sugimoto
    • Organizer
      The Commemorative International Symposium of Nucleic Acid Chemistry (CISNAC2019)
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Nucleic Acids Chemistry under the Molecular Crowding World2019

    • Author(s)
      N. Sugimoto
    • Organizer
      第29回バイオ・高分子シンポジウム
    • Related Report
      2019 Annual Research Report
  • [Presentation] 神経変性疾患に関わるRNAリピート配列とペプチドの相互作用解析2019

    • Author(s)
      建石 寿枝, Ye Teng, 大山 達也,田中 成典, 杉本 直己
    • Organizer
      第13回バイオ関連化学シンポジウム
    • Related Report
      2019 Annual Research Report
  • [Presentation] 生理活性分子に結合する天然RNAの網羅的スクリーニング2019

    • Author(s)
      遠藤玉樹、杉本直己
    • Organizer
      第13回バイオ関連化学シンポジウム
    • Related Report
      2019 Annual Research Report
  • [Presentation] Adventures of Guanine-quadruplex in Molecular Crowding World2019

    • Author(s)
      N. Sugimoto
    • Organizer
      The 7th International Meeting on Quadruplex Nucleic Acids
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Role for G-quadruplexes of Nucleic Acids During Tumor Progression2019

    • Author(s)
      H. Tateishi-Karimata and N. Sugimoto
    • Organizer
      10th RSC-CSJ Joint Symposium
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 神経変性疾患に関わるRNA・ペプチドの細胞内での相互作用解析2019

    • Author(s)
      建石寿枝, 杉本直己
    • Organizer
      大阪大学蛋白研セミナー/第3回LLPS研究会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Adventures of Nucleic Acids in the Molecular Crowding World2019

    • Author(s)
      N. Sugimoto
    • Organizer
      Solvation Science Meets High Pressure Bioscience RESOLV ? 10th IMBP ? DFG FOR 1979
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] “To B or not to B” in Nucleic Acids Chemistry (3)2019

    • Author(s)
      N. Sugimoto
    • Organizer
      Advances in Noncanonical Nucleic Acids "ANNA2019"
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Effect of RNA structures on RNA and RNA/peptide accumulation in repeat-expansion disorders2019

    • Author(s)
      H. Tateihsi-Karimata and N. Sugimoto
    • Organizer
      Advances in Noncanonical Nucleic Acids "ANNA2019"
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Conformational Dynamics of the RNA G-Quadruplex and its Effect on Gene Expressions2019

    • Author(s)
      T. Endoh and N. Sugimoto
    • Organizer
      Advances in Noncanonical Nucleic Acids "ANNA2019"
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA グアニン四重鎖に結合する蛍光性リガンドの高圧力による発光増強効果2019

    • Author(s)
      高橋俊太郎, Bhowmik Sudipta, 杉本直己
    • Organizer
      第60回高圧討論会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Prediction method for DNA duplex stability in molecular crowding conditions2019

    • Author(s)
      S. Ghosh, S. Takahashi, T. Ohyama, T. Endoh, H. Kateishi-Karimata, N. Sugimoto
    • Organizer
      第46回国際核酸化学シンポジウム
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Topology-based DNA quadruplex sensors for characterization of intracellular crowding environments2019

    • Author(s)
      S. Takahashi, J. Yamamoto, A. Kitamura, M. Kinjo, N. Sugimoto
    • Organizer
      第46回国際核酸化学シンポジウム
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Screening of transcriptomic RNAs that interact with thioflavin T derivative2019

    • Author(s)
      T. Endoh, M. Kuwahara, Y. Kataoka, N. Sugimoto
    • Organizer
      第46回国際核酸化学シンポジウム
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Effect of RNA topology on phase separation of peptides and proteins in neurodegenerative diseases2019

    • Author(s)
      H. Tateishi-Karimata, Y. Teng, T. Ohyama, S. Tanaka, E. Chatani, N. Sugimoto
    • Organizer
      第46回国際核酸化学シンポジウム
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Development of new prediction parameters for RNA/DNA hybrid duplex stability under a physiological buffer condition2019

    • Author(s)
      D. Banerjee, H. Tateishi-Karimata, T. Ohyama, T. Endoh, S. Takahashi, N. Sugimoto
    • Organizer
      第46回国際核酸化学シンポジウム
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Adventure on the World of Noncanonical Nucleic Acids2019

    • Author(s)
      N. Sugimoto
    • Organizer
      The Symposium on Nucleic Acid Chemistry
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Book] 核酸化学ハンドブック2020

    • Author(s)
      杉本直己
    • Total Pages
      565
    • Publisher
      講談社
    • ISBN
      9784065207864
    • Related Report
      2020 Annual Research Report
  • [Remarks] 甲南大学先端生命工学研究所ホームページ

    • URL

      http://www.konan-fiber.jp/indexb/

    • Related Report
      2021 Annual Research Report
  • [Remarks] 甲南大学先端生命工学研究所ホームページ

    • URL

      http://www.konan-fiber.jp/index.php

    • Related Report
      2020 Annual Research Report
  • [Remarks] 甲南大学先端生命工学研究所

    • URL

      http://www.konan-fiber.jp/index.php

    • Related Report
      2019 Annual Research Report

URL: 

Published: 2019-04-18   Modified: 2023-01-30  

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