Personnel Information

写真a

MASAKI YOSHIAKI


Job title

Associate Professor
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Graduating School 【 display / non-display 】

  • Waseda University, Faculty of Science and Engineering, 2005.03, Graduated

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Graduate School 【 display / non-display 】

  • Waseda University, Graduate School, Division of Science and Engineering, Master's Course, 2007.03, Completed

  • Tokyo Institute of Technology, Graduate School, Division of Life Science and Engineering, Doctor's Course, 2010.03, Completed

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Campus Career 【 display / non-display 】

  • 2023.09
    -
    Now
    Tokyo Medical and Dental University， Institute of Research， a， TIDE Center， Associate Professor
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External Career 【 display / non-display 】

  • , Project Researcher
  • , Associate Professor
  • , Assistant Professor
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Research Areas 【 display / non-display 】

  • Synthetic organic chemistry

  • Bioorganic chemistry

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Research Theme 【 display / non-display 】

  • Development of chemcial modifications optimized for oligonucleotide-protein complex formation, 2017.04 - 2021.03

  • Deformability analysis for rational design of sugar-modified oligonucleotides, 2014.04 - 2017.03

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Published Papers & Misc 【 display / non-display 】

  1. Kanagawa T, Tachibana S, Masaki Y, Seio K. Synthesis and Conformational Analyses of Cyclonucleoside Having 13-Membered Ring Bridging Nucleobase and 5'-Position via a Linker Containing Sulfonamide. Organic letters. 2023.11; 25 (43): 7868-7872. ( PubMed, DOI )

  2. Kanagawa T, Koyoma A, Masaki Y, Seio K. Alteration of target cleavage patterns and off-target reduction of antisense oligonucleotides incorporating 2-N-carbamoyl- or (2-pyridyl)guanine. Organic & biomolecular chemistry. 2023.06; 21 (25): 5214-5224. ( PubMed, DOI )

  3. Masaki Y, Tabira A, Hattori S, Wakatsuki S, Seio K. Insertion of a methylene group into the backbone of an antisense oligonucleotide reveals the importance of deoxyribose recognition by RNase H. Organic & biomolecular chemistry. 2022.11; 20 (45): 8917-8924. ( PubMed, DOI )

  4. Tomori T, Uekusa K, Koyama A, Kanagawa T, Masaki Y, Seio K. Synthesis of 2'-O-[3-(N-methylsulfamoyl)propan-1-yl]ribothymidine as a potentially applicable 2'-modified nucleoside for antisense oligonucleotides. Bioorganic & medicinal chemistry. 2022.11; 73 117002. ( PubMed, DOI )

  5. Masaki Y, Onishi Y, Seio K. Quantification of synthetic errors during chemical synthesis of DNA and its suppression by non-canonical nucleosides. Scientific reports. 2022.07; 12 (1): 12095. ( PubMed, DOI )

  6. Okamura H, Trinh GH, Dong Z, Masaki Y, Seio K, Nagatsugi F. Selective and stable base pairing by alkynylated nucleosides featuring a spatially-separated recognition interface. Nucleic acids research. 2022.04; 50 (6): 3042-3055. ( PubMed, DOI )

  7. Masaki Y, Maruyama A, Yoshida K, Tomori T, Kishimura T, Seio K. Oligodeoxynucleotides Modified with 2'-O-(Cysteinylaminobutyl)carbamoylethylribothymidine Residues for Native Chemical Ligation with Peptide at Internal Positions. Bioconjugate chemistry. 2022.02; 33 (2): 272-278. ( PubMed, DOI )

  8. Kishimura T, Tomori T, Masaki Y, Seio K. Synthesis of 2'-O-alkylcarbamoylethyl-modified oligonucleotides with enhanced nuclease resistance that form isostable duplexes with complementary RNA. Bioorganic & medicinal chemistry letters. 2021.03; 35 127779. ( PubMed, DOI )

  9. Hara Y, Mizobe Y, Inoue YU, Hashimoto Y, Motohashi N, Masaki Y, Seio K, Takeda S, Nagata T, Wood MJA, Inoue T, Aoki Y. Novel EGFP reporter cell and mouse models for sensitive imaging and quantification of exon skipping. Scientific reports. 2020.06; 10 (1): 10110. ( PubMed, DOI )

  10. Takeshita L, Yamada Y, Masaki Y, Seio K. Synthesis of Deoxypseudouridine 5'-Triphosphate Bearing the Photoremovable Protecting Group at the N1 Position Capable of Enzymatic Incorporation to DNA. The Journal of organic chemistry. 2020.02; 85 (4): 1861-1870. ( PubMed, DOI )

  11. Seio K, Yamaguchi K, Yamazaki A, Kanamori T, Masaki Y. Transcription of DNA duplex containing deoxypseudouridine and deoxypseudoisocytidine, and inhibition of transcription by triplex forming oligonucleotide that recognizes the modified duplex. Nucleosides, nucleotides & nucleic acids. 2020; 39 (6): 892-904. ( PubMed, DOI )

  12. Masaki Y, Yamamoto K, Yoshida K, Maruyama A, Tomori T, Iriyama Y, Nakajima H, Kanaki T, Seio K. Modification of oligonucleotides with weak basic residues via the 2'-O-carbamoylethyl linker for improving nuclease resistance without loss of duplex stability and antisense activity. Organic & biomolecular chemistry. 2019.05; 17 (19): 4835-4842. ( PubMed, DOI )

  13. Kanamori T, Masaki Y, Oda Y, Ohzeki H, Ohkubo A, Sekine M, Seio K. DNA triplex-based fluorescence turn-on sensors for adenosine using a fluorescent molecular rotor 5-(3-methylbenzofuran-2-yl) deoxyuridine. Organic & biomolecular chemistry. 2019.02; 17 (8): 2077-2080. ( PubMed, DOI )

  14. Masaki Y, Inde T, Maruyama A, Seio K. Tolerance of N(2)-heteroaryl modifications on guanine bases in a DNA G-quadruplex. Organic & biomolecular chemistry. 2019.01; 17 (4): 859-866. ( PubMed, DOI )

  15. Masaki Y, Yamamoto K, Inde T, Yoshida K, Maruyama A, Nagata T, Tanihata J, Takeda S, Sekine M, Seio K. Synthesis of 2'-O-(N-methylcarbamoylethyl) 5-methyl-2-thiouridine and its application to splice-switching oligonucleotides. Bioorganic & medicinal chemistry letters. 2019.01; 29 (2): 160-163. ( PubMed, DOI )

  16. Masaki Y, Iriyama Y, Nakajima H, Kuroda Y, Kanaki T, Furukawa S, Sekine M, Seio K. Application of 2'-O-(2-N-Methylcarbamoylethyl) Nucleotides in RNase H-Dependent Antisense Oligonucleotides. Nucleic acid therapeutics. 2018.10; 28 (5): 307-311. ( PubMed, DOI )

  17. Tomori, T; Nagaoka, K; Takeshita, L; Shiozawa, T; Miyatake, Y; Masaki, Y; Sekine, M; Seio, K. Deoxynucleoside Triphosphate Containing Pyridazin-3-one Aglycon as a Thymidine Triphosphate Substitute for Primer Extension and Chain Elongation by Klenow Fragments JOURNAL OF ORGANIC CHEMISTRY. 2018.08; 83 (15): 8353-8363. ( PubMed, DOI )

  18. Seio, K; Kanamori, T; Masaki, Y. Solvent- and environment-dependent fluorescence of modified nucleobases TETRAHEDRON LETTERS. 2018.05; 59 (21): 1977-1985. ( DOI )

  19. Ohno K, Sugiyama D, Takeshita L, Kanamori T, Masaki Y, Sekine M, Seio K. Synthesis of photocaged 6-O-(2-nitrobenzyl)guanosine and 4-O-(2-nitrobenzyl) uridine triphosphates for photocontrol of the RNA transcription reaction. Bioorganic & medicinal chemistry. 2017.11; 25 (21): 6007-6015. ( PubMed, DOI )

  20. Inde T, Masaki Y, Maruyama A, Ito Y, Makio N, Miyatake Y, Tomori T, Sekine M, Seio K. Synthesis of oligonucleotides containing 2-N-heteroarylguanine residues and their effect on duplex/triplex stability. Organic & biomolecular chemistry. 2017.10; 15 (39): 8371-8383. ( PubMed, DOI )

  21. Masaki Y, Sekine M, Seio K. Deformability Calculation for Estimation of the Relative Stability of Chemically Modified RNA Duplexes. Current protocols in nucleic acid chemistry. 2017.03; 68 7.27.1-7.27.10. ( PubMed, DOI )

  22. Kanamori T, Takamura A, Tago N, Masaki Y, Ohkubo A, Sekine M, Seio K. Fluorescence enhancement of oligodeoxynucleotides modified with green fluorescent protein chromophore mimics upon triplex formation. Organic & biomolecular chemistry. 2017.02; 15 (5): 1190-1197. ( PubMed, DOI )

  23. Masaki Y, Ito H, Oda Y, Yamazaki K, Tago N, Ohno K, Ishii N, Tsunoda H, Kanamori T, Ohkubo A, Sekine M, Seio K. Enzymatic synthesis and reverse transcription of RNAs incorporating 2'-O-carbamoyl uridine triphosphate. Chemical communications (Cambridge, England). 2016.10; 52 (87): 12889-12892. ( PubMed, DOI )

  24. Seio K, Ohno Y, Ohno K, Takeshita L, Kanamori T, Masaki Y, Sekine M. Photo-controlled binding of MutS to photo-caged DNA duplexes incorporating 4-O-(2-nitrobenzyl) or 4-O-[2-(2-nitrophenyl)propyl]thymidine. Bioorganic & medicinal chemistry letters. 2016.10; 26 (19): 4861-4863. ( PubMed, DOI )

  25. Asami H, Tokugawa M, Masaki Y, Ishiuchi S, Gloaguen E, Seio K, Saigusa H, Fujii M, Sekine M, Mons M. Effective Strategy for Conformer-Selective Detection of Short-Lived Excited State Species: Application to the IR Spectroscopy of the N1H Keto Tautomer of Guanine. The journal of physical chemistry. A. 2016.04; 120 (14): 2179-84. ( PubMed, DOI )

  26. Tokugawa M, Masaki Y, Canggadibrata JC, Kaneko K, Shiozawa T, Kanamori T, Grøtli M, Wilhelmsson LM, Sekine M, Seio K. 7-(Benzofuran-2-yl)-7-deazadeoxyguanosine as a fluorescence turn-ON probe for single-strand DNA binding protein. Chemical communications (Cambridge, England). 2016.03; 52 (19): 3809-12. ( PubMed, DOI )

  27. Ito Y, Masaki Y, Kanamori T, Ohkubo A, Seio K, Sekine M. Synthesis of 5-[3-(2-aminopyrimidin-4-yl)aminopropyn-1-yl]uracil derivative that recognizes Ade-Thy base pairs in double-stranded DNA. Bioorganic & medicinal chemistry letters. 2016.01; 26 (1): 194-6. ( PubMed, DOI )

  28. Ohkubo A, Yamada K, Ito Y, Yoshimura K, Miyauchi K, Kanamori T, Masaki Y, Seio K, Yuasa H, Sekine M. Synthesis and triplex-forming properties of oligonucleotides capable of recognizing corresponding DNA duplexes containing four base pairs. Nucleic acids research. 2015.07; 43 (12): 5675-86. ( PubMed, DOI )

  29. Tomori T, Miyatake Y, Sato Y, Kanamori T, Masaki Y, Ohkubo A, Sekine M, Seio K. Synthesis of peptide nucleic acids containing pyridazine derivatives as cytosine and thymine analogs, and their duplexes with complementary oligodeoxynucleotides. Organic letters. 2015.03; 17 (6): 1609-12. ( PubMed, DOI )

  30. Kanamori T, Ohzeki H, Masaki Y, Ohkubo A, Takahashi M, Tsuda K, Ito T, Shirouzu M, Kuwasako K, Muto Y, Sekine M, Seio K. Controlling the fluorescence of benzofuran-modified uracil residues in oligonucleotides by triple-helix formation. Chembiochem : a European journal of chemical biology. 2015.01; 16 (1): 167-76. ( PubMed, DOI )

  31. Yamada T, Masaki Y, Okaniwa N, Kanamori T, Ohkubo A, Tsunoda H, Seio K, Sekine M. Synthesis and properties of oligonucleotides modified with 2'-O-(2-carboxyethyl)nucleotides and their carbamoyl derivatives. Organic & biomolecular chemistry. 2014.09; 12 (33): 6457-64. ( PubMed, DOI )

  32. Yamada K, Masaki Y, Tsunoda H, Ohkubo A, Seio K, Sekine M. A new modified cytosine base capable of base pairing with guanine using four hydrogen bonds. Organic & biomolecular chemistry. 2014.04; 12 (14): 2255-62. ( PubMed, DOI )

  33. Masaki Y, Miyasaka R, Hirai K, Kanamori T, Tsunoda H, Ohkubo A, Seio K, Sekine M. Properties of 5- and/or 2-modified 2'-O-cyanoethyl uridine residue: 2'-O-cyanoethyl-5-propynyl-2-thiouridine as an efficient duplex stabilizing component. Organic & biomolecular chemistry. 2014.02; 12 (7): 1157-62. ( PubMed, DOI )

  34. Iijima Y, Kojima S, Kodama E, Kurohagi S, Kanamori T, Masaki Y, Ohkubo A, Sekine M, Seio K. Modified oligodeoxynucleotide primers for reverse-transcription of target RNAs that can discriminate among length variants at the 3'-terminus. Organic & biomolecular chemistry. 2013.12; 11 (47): 8276-82. ( PubMed, DOI )

  35. Ohkubo A, Kondo Y, Suzuki M, Kobayashi H, Kanamori T, Masaki Y, Seio K, Nagai K, Sekine M. Chemical synthesis of U1 snRNA derivatives. Organic letters. 2013.09; 15 (17): 4386-9. ( PubMed, DOI )

  36. Yamada K, Ohkubo A, Esaka Y, Kanamori T, Masaki Y, Seio K, Sekine M. Base recognition of gap sites in DNA-DNA and DNA-RNA duplexes by short oligonucleotides. Bioorganic & medicinal chemistry letters. 2013.06; 23 (11): 3448-51. ( PubMed, DOI )

  37. Seio K, Kanamori T, Tokugawa M, Ohzeki H, Masaki Y, Tsunoda H, Ohkubo A, Sekine M. Fluorescent properties of oligonucleotides doubly modified with an indole-fused cytosine analog and 2-aminopurine. Bioorganic & medicinal chemistry. 2013.06; 21 (11): 3197-201. ( PubMed, DOI )

  38. Masaki Y, Miyasaka R, Hirai K, Tsunoda H, Ohkubo A, Seio K, Sekine M. Prediction of the stability of modified RNA duplexes based on deformability analysis: oligoribonucleotide derivatives modified with 2'-O-cyanoethyl-5-propynyl-2-thiouridine as a promising component. Chemical communications (Cambridge, England). 2012.07; 48 (58): 7313-5. ( PubMed, DOI )

  39. Seio K, Kurohagi S, Kodama E, Masaki Y, Tsunoda H, Ohkubo A, Sekine M. Short-RNA selective binding of oligonucleotides modified using adenosine and guanosine derivatives that possess cyclohexyl phosphates as substituents. Organic & biomolecular chemistry. 2012.02; 10 (5): 994-1006. ( PubMed, DOI )

  40. Tsunoda H, Kudo T, Masaki Y, Ohkubo A, Seio K, Sekine M. Biochemical behavior of N-oxidized cytosine and adenine bases in DNA polymerase-mediated primer extension reactions. Nucleic acids research. 2011.04; 39 (7): 2995-3004. ( PubMed, DOI )

  41. Masaki Y, Miyasaka R, Ohkubo A, Seio K, Sekine M. Linear relationship between deformability and thermal stability of 2'-O-modified RNA hetero duplexes. The journal of physical chemistry. B. 2010.02; 114 (7): 2517-24. ( PubMed, DOI )

  42. Masaki Y, Ohkubo A, Seio K, Sekine M. Synthesis of 6-N-(benzothiazol-2-yl)deoxyadenosine and its exciton-coupled circular dichroism. Bioorganic & medicinal chemistry. 2010.01; 18 (2): 567-72. ( PubMed, DOI )

  43. Seio K, Takaku Y, Miyazaki K, Kurohagi S, Masaki Y, Ohkubo A, Sekine M. Synthesis of terminally modified oligonucleotides and their hybridization dependence on the size of the target RNAs. Organic & biomolecular chemistry. 2009.06; 7 (11): 2440-51. ( PubMed, DOI )

  44. Seio K, Miyazaki K, Kurohagi S, Masaki Y, Tsunoda H, Ohkubo A, Sekine M. Synthesis and properties of terminally modified oligonucleotides capable of short-RNA selective hybridization. Nucleic acids symposium series (2004). 2009; (53): 13-4. ( PubMed, DOI )

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