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Graduating School 【 display / non-display 】
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Osaka University Faculty of Pharmaceutical Science Graduated
1985.4 - 1989.3
Graduate School 【 display / non-display 】
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Hokkaido University Graduate School, Division of Pharmaceutical Sciences Doctor's Course Completed
1991.4 - 1994.3
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Osaka University Graduate School, Division of Pharmaceutical Sciences Master's Course Completed
1989.4 - 1991.3
Studying abroad experiences 【 display / non-display 】
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2001.3-2002.3
Yale University Visiting Scholar
Campus Career 【 display / non-display 】
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KONAN UNIVERSITY Department of Nanobiochemistry, FIRST Professor
2009.4
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理工学部 機能分子化学科 准教授
2007.4 - 2009.3
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理工学部 機能分子化学科 助教授
2005.4 - 2007.3
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理工学部 機能分子化学科 講師
2001.4 - 2005.3
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理学部 化学科 講師
1996.4 - 2001.3
External Career 【 display / non-display 】
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住友化学工業株式会社 生命工学研究所
1994.4 - 1996.3
Country：Japan
Professional Memberships 【 display / non-display 】
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Nucleic Acids Therapeutics Society of Japan
2015.4
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The Japan Society of Nucleic Acids Chemistry
2017.11
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American Association for the Advancement of Science
1996.4
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The RNA Society
2007.4
Papers 【 display / non-display 】
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Different reactivity of Sp and Rp isomers of phosphorothioate-modified oligonucleotides in a duplex structure
Bioorg. Med. Chem. Lett. 2020
Joint Work
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Enhancement of exon skipping activity by reduction in the secondary structure content of LNA-based splice-switching oligonucleotides Reviewed
T. Shimo, K. Tachibana, Y. Kawawaki, Y. Watahiki, T. Ishigaki, Y. Nakatsuji, T. Hara, J. Kawakami and S. Obika
Chem. Commun. 55 6850 - 6853 2019.4
Joint Work
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Enhancement of exon skipping activity by reduction in the secondary structure content of LNA-based splice-switching oligonucleotides
T. Shimo, K. Tachibana, Y. Kawawaki, Y. Watahiki, T. Ishigaki, Y. Nakatsuji, T. Hara, J. Kawakami, S. Obika
Chem. Commun. 55 6850 - 6853 2019
Joint Work
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Influence of intracellular environment on allosteric ribozyme activity
Misaki Kameno, Mika Sawada, Nae Sakimoto and Junji Kawakami
Proc. 44th Intl. Symp. Nucleic Acid Chemistry 178 - 179 2017.11
Joint Work
Authorship：Lead author
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Quantification of stabilization effect of co-solutes on RNA tertiary interaction
Natsumi Sasaki, Daisuke Miyoshi and Junji Kawakami
Proc. 44th Intl. Symp. Nucleic Acid Chemistry 174 - 175 2017.11
Joint Work
Authorship：Lead author
Books and Other Publications 【 display / non-display 】
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ゼロからはじめるバイオ実験マスターコース③ 細胞培養トレーニング
西方敬人, 川上純司, 藤井敏司, 長濱宏治, 川内敬子（ Role： Joint author）
学研メディカル秀潤社 2015.4 （ ISBN:9784780909036 ）
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ゼロからはじめるバイオ実験マスターコース② 遺伝子組換え基礎実習
西方敬人, 川上純司, 藤井敏司, 長濱宏治（ Role： Joint author）
学研メディカル秀潤社 2012.12 （ ISBN:978-4-7809-0862-6 ）
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ゼロからはじめるバイオ実験マスターコース① 実験の基本と原理
西方敬人, 川上純司, 藤井敏司, 長濱宏治（ Role： Joint author）
学研メディカル秀潤社 2012.9 （ ISBN:978-4-7809-0856-5 ）
Review Papers (Misc) 【 display / non-display 】
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Pyrrolidinyl peptide nucleic acid with α/β-peptide backbone - A conformationally constrained PNA with unusual hybridization properties
C. Vilaivan, C. Srisuwannaket, C. Ananthanawat, C. Suparpprom, J. Kawakami, Y. Yamaguchi, Y. Tanaka, T. Vilaivan
Artificial DNA: PNA & XNA 2 11 2011
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Triplet analysis that identifies unpaired regions of functional RNAs
Junji Kawakami, Yoshie Yamaguchi, Naoki Sugimoto
Journal of Nucleic Acids 2011 2011
We developed a novel method for analyzing RNA sequences, deemed triplet analysis, and applied the method in an in vitro RNA selection experiment in which HIV-1 Tat was the target. Aptamers are nucleic acids that bind a desired target (bait), and to date, many aptamers have been identified by in vitro selection from enough concentrated libraries in which many RNAs had an obvious consensus primary sequence after sufficient cycles of the selection. Therefore, the higher-order structural features of the aptamers that are indispensable for interaction with the bait must be determined by additional investigation of the aptamers. In contrast, our triplet analysis enabled us to extract important information on functional primary and secondary structure from minimally concentrated RNA libraries. As a result, by using our method, an important unpaired region that is similar to the bulge of TAR was readily predicted from a partially concentrated library in which no consensus sequence was revealed by a conventional sequence analysis. Moreover, our analysis method may be used to assess a variety of structural motifs with desired function. © 2011 Junji Kawakami et al.
DOI： 10.4061/2011/471843
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Comparative thermodynamic analysis of RNA-protein interaction on surface and in solution
Y. Tanaka, K. Ishidate, K. Kishimoto, N. Sugimoto, J. Kawakami
Proc. 37th Intl. Symp. Nucleic Acids Chemistry 276 2010
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Accurate curve fitting procedure for UV melting analysis of highly thermostable RNA hairpins
J. Kawakami, Y. Tanaka, K. Kishimoto
Nucleic Acids Symp. Ser. 53 227 2009
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Recognition of a flipped base in a hairpinloop DNA by a small peptide
Junji Kawakami, Shinji Okabe, Yoshiatsu Tanabe, Naoki Sugimoto
NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 27 ( 3 ) 292 - 308 2008.3
Publisher：TAYLOR & FRANCIS INC
Two tiny hairpin DNAs, CORE (dAGGCTTCGGCCT) and AP2 (dAGGCTXCGGCCT,X:abasic nucleotide), fold into almost the same tetraloop hairpin structure with one exception, that is, the sixth thymine (T6) of CORE is exposed to the solvent water (Kawakami, J et al., Chem. Lett. 2001, 258-259). In the present study, we selected small peptides that bind to CORE or AP2 from a combinatorial pentapeptide library with 2.5 x 106 variants. On the basis of the structural information, the selected peptide sequences should indicate the essential qualifications for recognition of the hairpin loop DNA with and without a flipped base. In the selected DNA binding peptides, aromatic amino acids such as histidine for CORE and glutamine/aspartic acid for AP2 were found to be abundant amino acids. This amino acid preference suggests that CORE-binding peptides use)pi-pi stacking to recognize the target while hydrogen bonding is dominant for AP2-binding peptides. To investigate the binding properties of the selected peptide to the target, surface plasmon resonance was used. The binding constant of the interaction between CORE and a CORE-binding peptide (HWHHE) was about 1.1 x 10(6) M-1 at 25 degrees C and the resulting binding free energy change at 25 degrees C (Delta G(25)degrees) was - 8.2 kcal mol(-1). The binding of the peptide to AP2 was also analyzed and the resulting binding constant and Delta G(25)degrees were about 4.2 x 10(4) M-1 and -63 kcal mol(-1), respectively. The difference in the binding free energy changes (Delta Delta G(25)degrees) of 1.9 kcal mol(-1) was comparable to the values reported in other systems and was considered a consequence of the loss of pi-pi stacking. Moreover, the stabilization effect by stacking affected the dissociation step as well as the association step. Our results suggest that the existence Of an aromatic ring (T6 base) produces new dominant interactions between peptides and nucleic acids, although hydrogen bonding is the preferable mode of interaction in the absence of the flipping base. These findings regarding CORE and AP2 recognition are expected to give useful information in the design of novel artificial DNA binding peptides.
Presentations 【 display / non-display 】
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Locked nucleic acid (LNA) を導入した splice-switching oligonucleotides (SSO) の高次構造形成と活性の相関
中辻悠輔、下剛典、橘敬祐、川脇優希、綿引優花、石垣卓、原孝史、川上純司、小比賀聡
日本核酸医薬学会 第5回年会 (大阪) 日本核酸医薬学会
Event date： 2019.7
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細胞内におけるASOのmRNA結合を検出するアプタセンサーの構築
綿引優花、石垣卓、谷口慎也、赤松由御、川上純司
日本核酸医薬学会 第5回年会 (大阪) 日本核酸医薬学会
Event date： 2019.7
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好熱性細菌及び酵母菌による多段階培養発酵技術から得られた発酵エキスの有用性
川野大地、付子華、伊達朗、寥箏箏、聶菁、Eduardo Perez、Jose Fernandez、Corey Webb、Kristen Huber、Jeffry B. Stock、川上純司、孫培文
第44回日本香粧品学会 (東京)
Event date： 2019.6
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好熱性細菌と酵母の共培養発酵技術から得られた発酵エキスTIRACLEの機能評価
付子華、川野大地、伊達朗、寥箏箏、聶菁、Eduardo Perez、Jose Fernandez、Corey Webb、Kristen Huber、Jeffry B. Stock、川上純司、孫培文
日本薬学会第139年会 (千葉) 日本薬学会
Event date： 2019.3
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臨床試験中及び実用化された核酸医薬
谷口陽祐、川上純司、佐々木茂貴
日本薬学会第139年会 (千葉) 日本薬学会
Event date： 2019.3
Grant-in-Aid for Scientific Research 【 display / non-display 】
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ヘアピンループＤＮＡ／ＲＮＡを認識するモデルペプチドの速度論的機能評価
2004.4 - 2006.3
JSPS Grants-in-Aid for Scientific Research Grant-in-Aid for Young Scientists(B)
ヘアピンループＤＮＡ／ＲＮＡを認識するモデルペプチドの速度論的機能評価
領域・整理
・課題番号
4706
7305
16750150 -
ヘアピンループＤＮＡ／ＲＮＡを認識するモデルペプチドの速度論的機能評価
2004.4 - 2006.3
JSPS Grants-in-Aid for Scientific Research Grant-in-Aid for Young Scientists(B)
ヘアピンループＤＮＡ／ＲＮＡを認識するモデルペプチドの速度論的機能評価
領域・整理
・課題番号
4706
7305
16750150 -
ヘアピンループＤＮＡ／ＲＮＡを認識するモデルペプチドの速度論的機能評価
2004.4 - 2006.3
JSPS Grants-in-Aid for Scientific Research Grant-in-Aid for Young Scientists(B)
ヘアピンループＤＮＡ／ＲＮＡを認識するモデルペプチドの速度論的機能評価
領域・整理
・課題番号
4706
7305
16750150
Preferred joint research theme 【 display / non-display 】
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新規機能性核酸（アプタマー等）の取得
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リアルタイムPCR等を使用した遺伝子の定量解析
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人為的遺伝子発現調節（翻訳）
Committee Memberships 【 display / non-display 】
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2015.4 日本核酸医薬学会 評議員、幹事、事務局
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2016.9 日本核酸化学会 評議員
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2004.4 - 2017.3 高分子学会 バイオ・高分子研究会 運営委員
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2010.12 アンチセンスDNA/RNA研究会 第20回アンチセンスシンポジウム オーガナイザー
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2008.9 高分子学会 バイオ高分子研究会2008 オーガナイザー
Social Activities 【 display / non-display 】
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出張模擬講義
2014.12
毒学 - 薬学へのいざない／兵庫県立舞子高等学校
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模擬講義
2014.12
毒学／兵庫大学附属須磨ノ浦高等学校
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サイエンスパートナーシッププロジェクト
2014.8
自然科学入門講座「身近な生活から最先端の遺伝子研究について学ぶ」- 遺伝子鑑定／兵庫県立星陵高等学校
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etc
2014.3
遺伝子鑑定の精度・信憑性／兵庫県警察本部 刑事部
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模擬講義
2013.12
くすりの科学／須磨ノ浦女子高等学校