Presentations -
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神経変性疾患に関わる核酸の周辺環境に依存した構造解析とその制御, 福岡国際会議場・マリンメッセ福岡
建石寿枝, 杉本直己
第50回日本分子生物学会年会
Event date： 2024.11
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To B Or Not To B” In Nucleic Acids Chemistry Invited
N. Sugimoto
Solutions in Chemistry 2024 (Sveti Martin na Muri) 2024.11 The Croatian Chemical Society
Event date： 2024.11
Country：Croatia
Nucleic acids (DNA and RNA) are genetic materials in living organisms and formed by a sequence of nucleobases. The stability of nucleic acids structures cannot be determined from only the sequence composition, as this property critically depends on the surrounding environment of the solution. The intracellular condition is greatly different from that of the diluted buffer typically used for standard experiments and is not constant in each local area of the cell. Thus, to make excellent nanomaterials with nucleic acids working in cells, stability predictions should reflect the situation under intracellular conditions and are required importantly. In this lecture, I will provide an overview of the basic concepts, methods, and applications of predicting the stabilities of nucleic acid structures. I explain the theory of the most successful prediction method based on a nearest-neighbor (NN) model. To improve the versality of prediction, corrections for various solution conditions considered hydration have been investigated.1-6 I also describe advances in the prediction of non-canonical structures of G-quadruplexes and i-motifs. Finally, studies of ligands binding to canonical and non-canonical structures of nucleic acids are discussed for human health and diseases.
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Beyond the Watson-Crick Double Helix: Make New History of Nucleic Acids (9) Invited
N. Sugimoto
Asia 3 Roundtable on Nucleic Acids 2024 (Busan) 2024.11 A3RONA 2024 Organizing Committee
Event date： 2024.11
Country：Korea, Republic of
Nucleic acids (DNA and RNA) are genetic materials in living organisms and formed by a sequence of nucleobases. The stability of nucleic acids structures cannot be determined from only the sequence composition, as this property critically depends on the surrounding environment of the solution. The intracellular condition is greatly different from that of the diluted buffer typically used for standard experiments and is not constant in each local area of the cell. Thus, to make excellent nanomaterials with nucleic acids working in cells, stability predictions should reflect the situation under intracellular conditions and are required importantly. In this lecture, I will provide an overview of the basic concepts, methods, and applications of predicting the stabilities of nucleic acid structures. I explain the theory of the most successful prediction method based on a nearest-neighbor (NN) model. To improve the versality of prediction, corrections for various solution conditions considered hydration have been investigated. I also describe advances in the prediction of non-canonical structures of G-quadruplexes and i-motifs. Finally, studies of intracellular analysis and stability prediction are discussed for the application of NN parameters for human health and diseases.
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“To B or not to B” in Nucleic Acids Chemistry Invited
N. Sugimoto
The Seminar of Bioanalytical Chemistry Department, Faculty of Chemistry (Poznan) 2024.10 Adam Mickiewicz University
Event date： 2024.10
Country：Poland
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Nearest-neighbor parameters with AI beyond experiments: Prediction of RNA secondary structures containing mismatches
H. Tateishi-Karimata, B. Dipanwita, S. Takahashi, T. Fukunaga, M. Hamada, N. Sugimoto
Advances in Noncanonical Nucleic Acids “ANNA2024”
Event date： 2024.10
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Nearest-neighbor parameters meet AI: Functional prediction of DNAzyme
S. Takahashi, S. Ghosh, H. Tateishi-Karimata, T, Fukunaga, M. Hamada, N. Sugimoto
Advances in Noncanonical Nucleic Acids “ANNA2024”
Event date： 2024.10
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“To B or not to B” in Nucleic Acids Chemistry Invited
N. Sugimoto
Giants and Forerunners in Nucleic Acid Chemistry (Ljubljana) 2024.10 the Slovenian Academy of Sciences and Arts
Event date： 2024.10
Country：Slovenia
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Quantitative Investigation of i-Motif Structures in the CDH1 Gene Under pH and Potassium Ion Fluctuation
K. Chen, H. Tateishi-Karimata, N. Sugimoto
第15回 日本女性科学者の会 学術大会
Event date： 2024.10
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細胞内核酸の安定性と機能を予測・決定するための重要因子を明らかにする疑似細胞システム
建石 寿枝, 高橋 俊太郎, 杉本 直己
第73回高分子討論会
Event date： 2024.9
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RNA複製酵素の精密性に及ぼす分子環境の効果
高橋 俊太郎, 建石 寿枝, 杉本 直己
第73回高分子討論会
Event date： 2024.9
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四重鎖DNAを内包した人工ウイルスキャプシドの創製, つくば国際会議場
石井 楽乃, 稲葉 央, 遠藤 玉樹, 建石 寿枝, 杉本 直己, 松浦 和則
第18回バイオ関連化学シンポジウム
Event date： 2024.9
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RNA複製エラーを引き起こす非ワトソン−クリック型塩基対形成
高橋 俊太郎, 建石 寿枝, 杉本 直己
第18回バイオ関連化学シンポジウム
Event date： 2024.9
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擬似細胞システムを使った細胞内の四重らせん構造の解析
建石寿枝, 高橋俊太郎, 川内敬子, Chen Kun, 凌一葦, 奥田修二郎, 遠藤玉樹, 杉本直己
第18回バイオ関連化学シンポジウム
Event date： 2024.9
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分子クラウディング環境に応答するグアニン四重鎖形成領域のゲノムワイドスクリーニング
遠藤玉樹, 奥田修二郎, 凌一葦, 建石寿枝, 杉本直己
第18回バイオ関連化学シンポジウム
Event date： 2024.9
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In Cell Statistical Thermodynamics for Analyzing and Controlling Functions of Nucleic Acids Invited
N. Sugimoto
Post-symposium of XXV International Roundtable of Nucleosides, Nucleotides and Nucleic Acids (IRT2024) 2024.9
Event date： 2024.9
Country：Japan
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“To B or not to B” in Nucleic Acids Chemistry Invited
N. Sugimoto
XXV International Roundtable of Nucleosides, Nucleotides and Nucleic Acids (IRT2024) (Katsushika Campus,Tokyo University of Science) 2024.9 The Japan Society of Nucleic Acids Chemistry
Event date： 2024.9
Country：Japan
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Interactions between fluorogens and i-motif DNAs depending on loop sequences
T. Endoh, S. Das, S. Takahashi, J. Tan, S. Chen, N. Sugimoto
XXV International Roundtable of Nucleosides
Event date： 2024.9
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Twisting of helicity induces diverse functionality of i-motif DNA
S. Takahashi, S. Ghosh, M. Trajkovski, T. Ohyama, J. Plavec, N. Sugimoto
XXV International Roundtable of Nucleosides
Event date： 2024.9
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Quantify specific interactions determining G-quadruplex function during cancer progression using a pseudo-cellular system
H. Tateishi-Karimata, K. Kawauchi, S. Takahashi, N. Sugimoto
XXV International Roundtable of Nucleosides
Event date： 2024.9
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Gene regulatory mechanisms of imperfect G-quadruplexes with bulges
S. Sarkar, H. Tateishi-Karimata, T. Ohyama, N. Sugimoto
XXV International Roundtable of Nucleosides
Event date： 2024.9