科学技術振興機構 さきがけ エピジェネティクスの制御と生命機能 エピジェネティクスの制御と生命機能さきがけ独立行政法人科学技術振興機構

研究成果

山口　雄輝 （Yuki Yamaguchi)

原著欧文論文

  1. Kawano, A., Hayashi, Y., Noguchi, S., Handa, H., Horikoshi, M., and Yamaguchi, Y. (2011) Global analysis for functional residues of histone variant Htz1 using the comprehensive point mutant library. Genes to Cells, Vo.16,(No.5).p590-607.

  2. Kim, S., Yamamoto, J., Chen, Y., Aida, M., Wada, T., Handa, H., and Yamaguchi, Y. (2010) Evidence that cleavage factor Im is a heterotetrameric protein complex controlling alternative polyadenylation. Genes Cells 15, 1003-1013.
  3. Chiba, K., Yamamoto, J., Yamaguchi, Y., and Handa, H. (2010) Promoter-proximal pausing and its release: molecular mechanisms and physiological functions. Exp. Cell Res., in press. (review)
  4. Kume, K., Iizumi, Y., Shimada, M., Ito, Y., Kishi, T., Yamaguchi, Y., and Handa, H. (2010) Role of N-end rule ubiquitin ligases UBR1 and UBR2 in regulating the leucine-mTOR signaling pathway. Genes Cells 15, 339-349.
  5. Ito, T., Ando, H., Suzuki, T., Ogura, T., Hotta, K., Imamura, Y., Yamaguchi, Y., and Handa, H. (2010) Identification of a primary target of thalidomide teratogenicity. Science 327, 1345-1350
  6. Masaike, Y., Takagi, T., Hirota, M., Yamada, J., Ishihara, S., Yung, T.M.C., Inoue, T., Sawa, C., Sagara, H., Sakamoto, S., Kabe, Y., Takahashi, Y., Yamaguchi, Y., and Handa, H. (2009) Identification of dynamin-2-mediated endocytosis as a new target of osteoporosis drugs, bisphosphonates. Mol. Pharmacol. 77, 262-269.
  7. Chen, Y., Yamaguchi, Y. (shared 1st author), Tsugeno, Y., Yamamoto, J., Yamada, T., Nakamura, M., Hisatake, K., and Handa, H. (2009) DSIF, the Paf1 complex, and Tat-SF1 have non-redundant, cooperative roles in RNA polymerase II elongation. Genes Dev. 23, 2765-2777.
  8. Chen, H., Contreras, X., Yamaguchi, Y., Handa, H., Peterlin, B.M., and Guo, S. (2009) Repression of RNA Polymerase II elongation in vivo is critically dependent on the C-terminus of Spt5. PLoS ONE 4, e6918.
  9. Kamiya, H., Suzuki, A., Yamaguchi, Y., Handa, H., and Harashima, H. (2009) Incorporation of 8-hydroxyguanosine 5’-triphosphate (8-oxo-7,8-dihydroguanosine 5’-triphosphate) by bacterial and human RNA polymerases. Free Radic. Biol. Med. 46, 1703-1707.
  10. Yung, T.M.C., Narita, T., Komori, T., Yamaguchi, Y., and Handa, H. (2009) Cellular dynamics of the negative transcription elongation factor NELF. Exp. Cell Res. 315, 1693-1705.
  11. Kuramori, C., Hase, Y., Hoshikawa, K., Watanabe, K., Nishi, T., Hishiki, T., Soga, T., Nashimoto, A., Kabe, Y., Yamaguchi, Y., Watanabe, H., Kataoka, K., Suematsu, M., and Handa, H. (2009) Mono-(2-ethylhexyl) phthalate targets glycogen debranching enzyme and affects glycogen metabolism in rat testis. Toxicol. Sci. 109, 143-151.
  12. Sakamoto, S., Kabe, Y., Hatakeyama, M., Yamaguchi, Y., and Handa. H. (2009) Development and application of high-performance affinity beads: toward chemical biology and drug discovery. Chem. Rec. 9, 66-85.
  13. Kuramori, C., Azuma, M., Kume, K., Kaneko, Y., Inoue, A., Yamaguchi, Y., Kabe, Y., Hosoya, T., Kizaki, M., Suematsu, M., and Handa, H. (2009) Capsaicin binds to prohibitin 2 and displaces it from the mitochondria to the nucleus. Biochem. Biophys. Res. Commun. 379, 519-525.
  14. Komori, T., Inukai, N., Yamada, T., Yamaguchi, Y., and Handa, H. (2009) The role of human transcription elongation factor DSIF in the suppression of senescence and apoptosis. Genes Cells 14, 343-354.
  15. Azuma, M., Kabe, Y., Kuramori, C., Kondo, M., Yamaguchi, Y., and Handa, H. (2008) Adenine nucleotide translocator transports haem precursors into mitochondria. PLoS ONE 3, e3070.
  16. Takahashi, R.U., Kanesashi, S.N., Inoue, T., Enomoto, T., Kawano, M.A., Tsukamoto, H., Takeshita, F., Imai, T., Ochiya, T., Kataoka, K., Yamaguchi, Y., and Handa, H. (2008) Presentation of functional foreign peptides on the surface of SV40 virus-like particles. J. Biotechnol. 135, 385-392.
  17. Ando, K., Hirao, S., Kabe, Y., Ogura, Y., Sato, I., Yamaguchi, Y., Wada, T., and Handa, H. (2008) A new APE1/Ref-1-dependent pathway leading to reduction of NF-kB and AP-1, and activation of their DNA-binding activity. Nucleic Acids Res. 36, 4327-4336.
  18. Suzuki, M., Furukawa, S., Kuramori, C., Sawa, C., Kabe, Y., Nakamura, M., Sawada, J.I., Yamaguchi, Y., Sakamoto, S., Inouye, S., and Handa, H. (2008) Development of a chemical screening system using aqueorin-fused protein. Biochem. Biophys. Res. Commun. 368, 600-605.
  19. Hase, Y., Tatsuno, M., Nishi, T., Kataoka, K., Kabe, Y., Yamaguchi, Y., Ozawa, N., Natori, M., Handa, H., and Watanabe, H. (2008) Atrazine binds to F1F0-ATP synthase and inhibits mitochondrial function in sperm. Biochem. Biophys. Res. Commun. 366, 66-72.
  20. Tsukamoto, H., Kawano, M., Inoue, T., Enomoto, T., Takahashi, R., Yokoyama, N., Yamamoto, N., Imai, T., Kataoka, K., Yamaguchi, Y., and Handa, H. (2007) Evidence that SV40 VP1-DNA interactions contribute to the assembly of 40-nm spherical viral particles. Genes Cells 12, 1267-1279.
  21. Zhu, W., Wada, T., Okabe, S., Taneda, T., Yamaguchi, Y., and Handa, H. (2007) DSIF contributes to transcriptional activation by DNA-binding activators by preventing pausing during transcription elongation. Nucleic Acids Res. 35, 4064-4075.
  22. Amir-Zilberstein, L., Ainbinder, E., Taube, L., Yamaguchi, Y., Handa, H., and Dikstein, R. (2007) Differential regulation of NF・B by elongation factors is determined by core promoter type. Mol. Cell. Biol. 27, 5246-5259.
  23. Yamaguchi, Y., Mura, T., Chanarat, T., Okamoto, S., and Handa, H. (2007) Hepatitis delta antigen binds to the clamp of RNA polymerase II and affects transcriptional fidelity. Genes Cells 12, 863-875.
  24. Narita, T., Yung, T.M.C., Yamamoto, J., Tsuboi, Y., Tanabe, H., Tanaka, K., Yamaguchi, Y., and Handa, H. (2007) NELF interacts with CBC and participates in 3’-end processing of replication-dependent histone mRNAs. Mol. Cell 26, 349-365.
  25. Yugami, M., Kabe, Y., Yamaguchi, Y., Wada, T., and Handa, H. (2007) hnRNP-U enhances the expression of specific genes by stabilizing mRNA. FEBS Lett. 581, 1-7.
  26. Yamamoto, N., Suzuki, M., Kawano, M., Inoue, T., Takahashi, R., Tsukamoto, H., Enomoto, T., Yamaguchi, Y., Wada, T., and Handa, H. (2007) Adeno-associated virus site-specific integration is regulated by TRP-185. J. Virol. 81, 1990-2001.
  27. Nishio, K., Gokon, N., Hasegawa, M., Ogura, Y., Ikeda, M., Narimatsu, H., Tada, M., Yamaguchi, Y., Sakamoto, S., Abe, M., and Handa, H. (2007) Identification of a chemical substructure that is immobilized to ferrite nanoparticles (FP). Colloids Surf. B. Biointerfaces 54, 249-253.
  28. Kubo, T., Wada, T., Yamaguchi, Y., Shimizu, A., and Handa, H. (2006) Knock-down of 25-kDa subunit of cleavage factor Im in HeLa cells alters alternative polyadenylation within 3' UTRs. Nucleic Acid Res. 34, 6264-6271.
  29. Uga, H., Kuramori, C., Ohta, A., Tsuboi, Y., Tanaka, H., Hatakeyama, M., Yamaguchi, Y., Takahashi, T., Kizaki, M., and Handa, H. (2006) A new mechanism of methotrexate action revealed by target screening with affinity beads. Mol. Pharmacol. 70, 1832-1839.
  30. Aida, M., Chen, Y., Nakajima, K., Yamaguchi, Y., Wada, T., and Handa, H. (2006) Transcriptional pausing caused by NELF plays a dual role in regulating immediate-early expression of the junB gene. Mol. Cell. Biol. 26, 6094-6104.
  31. Ogura, Y., Azuma, M., Tsuboi, Y., Kabe, Y., Yamaguchi, Y., Wada, T., Watanabe, H., and Handa, H. (2006) TFII-I down-regulates a subset of estrogen-responsive genes through its interaction with an initiator element and estrogen receptor Genes Cells 11, 373-381.
  32. Yamada, T., Yamaguchi, Y. (shared 1st author), Inukai, N., Okamoto, S., Mura, T., and Handa, H. (2006) P-TEFb-mediated phosphorylation of the hSpt5 C-terminal repeats is critical for processive transcription elongation. Mol. Cell 21, 227-237.
  33. Delehouzee, S., Yoshikawa, T., Sawa, C., Sawada, J., Ito, T., Omori, M., Wada, T., Yamaguchi, Y., Kabe, Y., and Handa, H. (2005) GABP, HCF-1 and YY1 are involved in Rb gene expression during myogenesis. Genes Cells 10, 717-731.
  34. Azuma, N., Tadokoro, K., Asaka, A., Yamada, M., Yamaguchi, Y., Handa, H., Matsushima, S., Watanabe, T., Kida, Y., Ogura, T., Shimamura, K., and Nakafuku, M. (2005) Transdifferentiation of the retinal pigment epithelia to the neural retina by transfer of the Pax6 transcriptional factor. Hum. Mol. Genet. 14, 1059-1068.
  35. Wu, C.-H., Lee, C., Fan, R., Smith, M.J., Yamaguchi, Y., Handa, H., and Gilmour, D.S. (2005) Molecular characterization of Drosophila NELF. Nucleic Acids Res. 33, 1269-1279.
  36. Ohtsu, Y., Ohba, R., Imamura, Y., Kobayashi, M., Hatori, H., Zenkoh, T., Hatakeyama, M., Manabe, T., Hino, M., Yamaguchi, Y., Kataoka, K., Kawaguchi, H., Watanabe, H., and Handa, H. (2005) Selective ligand purification using high-performance affinity beads. Anal. Biochem. 338, 245-252.
  37. Wang, G., Balamotis, M.A., Stevens, J.L., Yamaguchi, Y., Handa, H., and Berk, A. (2005) Mediator requirement for both recruitment and post-recruitment steps in transcription initiation. Mol. Cell 17, 683-694.
  38. Azuma, N., Tadokoro, K., Asaka, A., Yamada, M., Yamaguchi, Y., Handa, H., Matsushima, S., Watanabe, T., Kohsaka, S., Kida, Y., Shiraishi, T., Ogura, T., Shimamura, K., and Nakafuku, M. (2005) The Pax6 isoform bearing an alternative spliced exon promotes the development of the neural retinal structure. Hum. Mol. Genet. 14, 735-745.
  39. Kabe, Y., Yamada, J., Uga, H., Yamaguchi, Y., Wada, T., and Handa, H. (2005) NF-Y is essential for the recruitment of RNA polymerase II and inducible transcription of several CCAAT box-containing genes. Mol. Cell. Biol. 25, 512-522.
  40. Jennings, B.H., Shah, S., Yamaguchi, Y., Seki, M., Phillips, R.G., Handa, H., and Ish-Horowicz, D. (2004) Locus-specific requirements for Spt5 in transcriptional activation and repression in Drosophila. Curr. Biol. 14, 1680-1684.
  41. Aiyar, S.E., Sun, J.-L., Blair, A.L., Moskaluk, C.A., Lv, Y., Ye, Q.-N., Yamaguchi, Y., Mukherjee, A., Ren, D.-M., Handa, H., and Li, R. (2004) Attenuation of estrogen receptor a-mediated transcription through estrogen-stimulated recruitment of a negative elongation factor. Genes Dev. 18, 2134-2146.
  42. Oshima, S., Nakamura, T., Namiki, S., Okada, E., Tsuchiya, K., Okamoto, R., Yamazaki, M., Yokota, T., Aida, M., Yamaguchi, Y., Kanai, T., Handa, H., and Watanabe, M. (2004) Interferon regulatory factor 1 (IRF-1) and IRF-2 distinctively up-regulate gene expression and production of interleukin-7 in human intestinal epithelial cells. Mol. Cell. Biol. 24, 6298-6310.
  43. Endou, M., Zhu, W., Hasegawa, J., Watanabe, H., Kim, D.-K., Aida, M., Inukai, N., Narita, T., Yamada, T., Furuya, A., Sato, H., Yamaguchi, Y., Mandal, S.S., Reinberg, D., Wada, T., and Handa, H. (2004) Human Spt6 stimulates transcription elongation by RNA polymerase II in vitro. Mol. Cell. Biol. 24, 3324-3336.
  44. Ainbinder, E., Amir-Zilberstein, L., Yamaguchi, Y., Handa, H., and Dikstein, R. (2004) Elongation inhibition by DRB sensitivity-inducing factor is regulated by the A20 promoter via a novel negative element and NF-kB. Mol. Cell. Biol. 24, 2444-2454.
  45. Inukai, N., Yamaguchi, Y., Kuraoka, I., Yamada, T., Kamijo, S., Kato, J., Tanaka, K., and Handa, H. (2004) A novel hydrogen peroxide-induced phosphorylation and ubiquitination pathway leading to RNA polymerase II proteolysis. J. Biol. Chem. 279, 8190-8195.
  46. Wu, C.-H., Yamaguchi, Y., Benjamin, L.R., Horvat-Gordon, M., Washinski, J., Enerly, E., Larsson, J., Lambertsson, A., Handa, H., and Gilmour, D.S. (2003) NELF and DSIF cause promoter proximal pausing on the hsp70 promoter in Drosophila. Genes Dev. 17, 1402-1414.
  47. Hasegawa, J., Endou, M., Narita, T., Yamada, T., Yamaguchi, Y., Wada, T., and Handa, H. (2003) A rapid purification method for human RNA polymerase II by two-step affinity chromatography. J. Biochem. 133, 133-138.
  48. Azuma, N., Yamaguchi, Y., Handa, H., Tadokoro, K., Asaka, A., Kawase, E., and Yamada, M. (2003) Mutations of the PAX6 gene detected in patients with a variety of optic nerve malformations. Am. J. Hum. Genet. 72, 1565-1570.
  49. Nedialkov, Y.A., Gong, X.Q., Hovde, S.L., Yamaguchi, Y., Handa, H., Geiger, J.H., Yan, H., and Burton, Z.F. (2003) NTP-driven translocation by human RNA polymerase II. J. Biol. Chem. 278, 18303-18312.
  50. Narita, T., Yamaguchi, Y. (shared 1st author), Yano, K., Sugimoto, S., Chanarat, S., Wada, T., Kim, D., Hasegawa, J., Omori, M., Inukai, N., Endoh, M., Yamada, T., and Handa, H. (2003) Human transcription elongation factor NELF: Identification of novel subunits and reconstitution of the functionally active complex. Mol. Cell. Biol. 23, 1863-1873.
  51. Kim, D., Inukai, N., Yamada, T., Furuya, A., Sato, H., Yamaguchi, Y., Wada, T., and Handa, H. (2003) Structure-function analysis of human Spt4: evidence that hSpt4 and hSpt5 exert their roles in transcriptional elongation as parts of the DSIF complex. Genes Cells 8, 371-378.
  52. Shima, D., Yugami, M., Tatsuno, M., Wada, T., Yamaguchi, Y., and Handa, H. (2003) Mechanism of H-8 inhibition of Cyclin-dependent kinase 9: study using inhibitor-immobilized matrices. Genes Cells 8, 215-223.
  53. Kuraoka, I., Endou, M., Yamaguchi, Y., Wada, T., Handa, H., and Tanaka, K. (2003) Effects of endogeneous DNA base lesions on transcription elongation by mammalian RNA polymerase II: Implications for transcription-coupled DNA repair and transcriptional mutagenesis. J. Biol. Chem. 278, 7294-7299.
  54. Nishi, T., Shimizu, N., Hiramoto, M., Sato, I., Yamaguchi, Y., Hasegawa, M., Aizawa, S., Tanaka, H., Kataoka, K., Watanabe, H., and Handa, H. (2002) Spatial redox regulation of a critical cysteine residue of NF-kB in vivo. J. Biol. Chem. 277, 44548-44556.
  55. Yamaguchi, Y., Delehouzee, S., and Handa, H. (2002) HIV and HDV: evolution takes different paths to relieve blocks in transcriptional elongation. Microbes Infect. 4, 1169-1175 (review).
  56. Yamaguchi, Y., Inukai, N., Narita, T., Wada, T., and Handa, H. (2002) Evidence that negative elongation factor represses transcription elongation through binding to a DRB sensitivity-inducing factor/RNA polymerase II complex and RNA. Mol. Cell. Biol.22, 2918-2927
  57. Renner, D.B., Yamaguchi, Y., Wada, T., Handa, H., and Price, D.H. (2001) A highly purified RNA polymerase II elongation control system. J. Biol. Chem. 276, 42601-42609.
  58. Yamaguchi, Y., Filipovska, J., Yano, K., Furuya, A., Inukai, N., Narita, T., Wada, T., Sugimoto, S., Konarska, M.M., and Handa, H. (2001) Stimulation of RNA polymerase II elongation by hepatitis delta antigen. Science 293, 124-127.
  59. Kim, D., Yamaguchi Y., Wada, T., and Handa, H. (2001) The regulation of elongation by eukaryotic RNA polymerase II: A recent view. Mol. Cells 11, 267-274 (review).
  60. Shiba, K., Hamaguchi, T., Kataoka, K., Yamaguchi, Y., Handa, H., and Adachi, K. (2001) Cloning of the hamstar androgen receptor gene. J. Dermatol. Sci. 26, 163-168.
  61. Yamaguchi, Y., Narita, T., Inukai, N., Wada, T., and Handa, H. (2001) SPT genes: Key players in the regulation of transcription, chromatin structure and other cellular processes. J. Biochem. 129, 185-191 (review).
  62. Guo, S., Yamaguchi, Y., Schilbach, S., Wada, T., Lee, J., Goddard, A., French, D., Handa, H., and Rosenthal, A. (2000) A regulator of transcriptional elongation controls vertebrate neuronal development. Nature 408, 366-369.
  63. Wada, T., Orphanides, G., Hasegawa, J., Kim, D.-K., Shima, D., Yamaguchi, Y., Fukuda, A., Hisatake, K., Oh, S., Reinberg, D., and Handa, H. (2000) FACT relieves DSIF/NELF-mediated inhibition of transcriptional elongation and reveals functional differences between P-TEFb and TFIIH. Mol. Cell 5, 1067-1072.
  64. Kim, J.B., Yamaguchi, Y., Wada, T., Handa, H., and Sharp, P.A. (1999) Tat-SF1 protein associates with RAP30 and human SPT5 proteins. Mol. Cell. Biol. 19, 5960-5968.
  65. Yamaguchi, Y., Wada, T., Watanabe, D., Takagi, T., Hasegawa, J., and Handa, H. (1999) Structure and function of the human transcription elongation factor DSIF. J. Biol. Chem. 274, 8085-8092.
  66. Azuma, N., Yamaguchi, Y., Handa, H., Hayakawa, M., Kanai, A., and Yamada, M. (1999) Missense mutation in the alternative splice region of the PAX6 gene in eye anomalies. Am. J. Hum. Genet. 65, 656-663.
  67. Nishina, S., Kohsaka, S., Yamaguchi, Y., Handa, H., Kawakami, A., Fujisawa, H., and Azuma, N. (1999) PAX6 expression in the developing human eye. Br. J. Ophthalmol. 83, 723-727.
  68. Yamaguchi, Y., Takagi, T., Wada, T., Yano, K., Furuya, A., Sugimoto, S., Hasegawa, J., and Handa, H. (1999) NELF, a multisubunit complex containing RD, cooperates with DSIF to repress RNA polymerase II elongation. Cell 97, 41-51.
  69. Wada, T., Takagi, T., Yamaguchi, Y. (shared 1st author), Watanabe, D., and Handa, H. (1998) Evidence that P-TEFb alleviates the negative effect of DSIF on RNA polymerase II-dependent transcription in vitro. EMBO J. 17, 7395-7403.
  70. Yamaguchi, Y., Wada, T., and Handa, H. (1998) Interplay between positive and negative elongation factors: drawing a new view of DRB. Genes Cells 3, 9-15 (review).
  71. Wada, T., Takagi, T., Yamaguchi, Y., Ferdous, A., Imai, T., Hirose, S., Sugimoto, S., Yano, K., Hartzog, G.A., Winston, F., Buratowski, S., and Handa, H. (1998) DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs. Genes Dev. 12, 343-356.
  72. Yamaguchi, Y., Wada, T., Suzuki, F., Takagi, T., Hasegawa, J., and Handa, H. (1998) Casein kinase II interacts with the bZIP domains of several transcription factors. Nucleic Acids Res. 26, 3854-3861.
  73. Yamaguchi, Y., Sawada, J., Yamada, M., Handa, H., and Azuma, N. (1997) Autoregulation of Pax6 transcriptional activation by two distinct DNA-binding subdomains of the paired domain. Genes Cells 2, 255-261.
  74. Wada, T., Takagi, T., Yamaguchi, Y., Kawase, H., Hiramoto, M., Ferdous, A., Takamiya, M., Lee, K.A., Hurst, H.C., and Handa, H. (1996) Copurification of casein kinase II with transcription factor ATF/E4TF3. Nucleic Acids Res. 24, 876-884.
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欧文著書

  1. Handa, H. and Yamaguchi, Y. (2006) Hepatitis Delta Virus, Landes Bioscience, Texas, USA.
  2. Nedialkov, Y.A., Gong, X.Q., Yamaguchi, Y., Handa, H., and Burton, Z.F. (2003) Assay of transient state kinetics of elongation by human RNA polymerase II. in Methods in Enzymol. Vol. 371 (eds. S.L. Adbya, S. Garges), pp. 252-264, Elsevier Academic Press, California, USA.
  3. Handa, H., Yamaguchi, Y., and Wada, T. (1999) Purification of DNA binding proteins. in, High resolution chromatography: A practical approach (ed. P.A. Miller), pp. 283-302, Oxford University Press, Oxford, UK.
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和文著書

  1. 山口雄輝，半田宏
    転写制御とエピジェネティクス-ゲノムデコードに向けて-南山堂,2008．(分担執筆)
  2. 山口雄輝，半田宏
    細胞周期依存的なヒストンの発現機構：蛋白質核酸酵素 52，1857-1862，2007．(分担執筆)
  3. 山口雄輝，半田宏，和田忠士
    転写因子による生命現象解明の最前線：実験医学増刊 25，53-59，2007．(分担執筆)
  4. 山口雄輝
    ケミカルバイオロジー・ケミカルゲノミクス，シュプリンガー・フェアラーク，2005．(分担執筆)
  5. 山口雄輝
    転写研究集中マスター，羊土社，2005．(分担編集・分担執筆)
  6. 山口雄輝
    科学英語論文の赤ペン添削講座，羊土社，2005．(執筆)
  7. 山口雄輝
    キーワードで理解する転写イラストマップ，羊土社，2004．(分担執筆)
  8. 山口雄輝
    わかる実験医学シリーズ 転写がわかる，羊土社，2002．（分担執筆）
  9. 山口雄輝，半田 宏
    D型肝炎ウイルス (HDV) の増殖メカニズム：遺伝子医学 5，664-669，2001．
  10. 山口雄輝
    ゲノムからの情報発現 転写因子とその機能，シュプリンガー・フェアラーク，2000．（分担執筆）
  11. 山口雄輝，半田宏
    正反対の機能を使い分ける新たな転写調節因子：化学と生物 39，2000．（分担執筆）
  12. 山口雄輝，和田忠士，半田 宏
    転写伸長反応の制御メカニズム-DSIF，NELF，P-TEFb，FACT，TFIIHの新たな関係：実験医学
    18，2246-2249，2000．（分担執筆）
  13. 山口雄輝，和田忠士，半田宏
    転写伸長反応の制御機構：蛋白質核酸酵素 45，1476-1483，2000．(担執筆）
  14. 山口雄輝，和田忠士，半田宏
    概説 基本転写のメカニズム：蛋白質核酸酵素 45，1473-1475，2000．（分担執筆）
  15. 山口雄輝
    BioScience用語ライブラリー新版，羊土社，1999．（分担執筆）
  16. 高木敏行，山口雄輝，和田忠士，半田宏
    新規転写因子DSIFによる転写伸長制御機構の解析
    実験医学増刊 17，213-218，1999．（分担執筆）
  17. 山口雄輝，半田宏：ウイルスと転写因子
    臨床医 23，739-742，1997．（分担執筆）
  18. 和田忠士，山口雄輝，高木敏行，半田宏
    DRBによる転写抑制機構：実験医学増刊 15，44-50，1997．（分担執筆）
  19. 山口雄輝
    分子細胞生物学事典，東京化学同人，1996．（分担執筆）
  20. 山口雄輝
    転写のしくみと疾患，羊土社，1995．（分担執筆）
  21. 山口雄輝
    BioScience用語ライブラリー，羊土社，1995．（分担執筆）
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発表・講演

  1. Yamaguchi, Y. and Handa, H. Roles of transcription elongation factors in gene expression. International Meeting on P-TEFb and the regulation of transcriptional elongation, Kreuth, Germany, Sept. 19-22, 2010.
  2. Yamaguchi, Y., Chen, Y., Cao, Q., and Handa, H. Chromatin-dependent and -independent roles of DSIF and the Paf1 complex in transcription elongation. The 9th EMBL Transcription and Chromatin Meeting, Heidelberg, Germany, Aug. 28-31, 2010.
  3. 山口雄輝
    転写伸長段階における遺伝子発現制御：第3回「情報と細胞機能」研究会，北海道，2010年3月4-5日．
  4. Yamaguchi, Y. Potential role of transcription elongation factors and elongation control in differentiation and maintenance of ES cells. Japan-Israel Workshop on Stem Cells, Haifa and Jerusalem, Israel, Feb. 23-25, 2010.
  5. Yamaguchi, Y. Multifaceted gene regulation by transcription elongation factors. Tokyo Tech-Tsinghua University Joint Symposium on New Frontiers in Biological Systems, Tokyo, Japan, Nov. 30, 2009.
  6. Yamaguchi, Y., Chen, Y., and Handa, H. Mechanism of phosphorylation-dependent elongation activation by DSIF. EMBO Workshop on Messenger RNA 3’ Ends & Gene Expression, Oxford, UK, Sept. 16-20, 2009.
  7. Yamaguchi, Y., Chen, Y., Tsugeno, Y., and Handa, H. DSIF, the Paf1 complex, and Tat-SF1 have non-redundant, cooperative roles in RNA polymerase II elongation. CSHL Meeting on Mechanisms of Eukaryotic Transcription, Cold Spring Harbor, NY, USA, Aug. 25-29, 2009.
  8. Yamaguchi, Y. and Handa, H. The emerging role of transcription elongation factors in genome expression. Symposium for Eco-environmental and Biological Technology, Beijing, China, Aug. 5, 2009.
  9. 山口雄輝
    転写伸長反応制御のメカニズム：第2回「情報と細胞機能」研究会，京都，2009年2月13-14日．
  10. 山口雄輝，半田宏
    転写伸長反応制御のメカニズム：第31回日本分子生物学会年会，神戸，2008年12月9-12日．
  11. Yamaguchi, Y., Chen, Y., Tsugeno, Y., and Handa, H. DSIF, the Paf1 complex, and Tat-SF1 have non-redundant, cooperative roles in RNA polymerase II elongation. The 8th EMBL Transcription Meeting, Heidelberg, Germany, Aug. 23-27, 2008.
  12. Yamaguchi, Y. Multifaceted gene regulation by transcription elongation factors. The 21st Naito Conference on Nuclear Dynamics and RNA [I], Yamanashi, Japan, June 24-27, 2008.
  13. Yamaguchi, Y. and Handa, H. New approach to chemical biology for basic science and drug discovery. Tokyo Tech G-COE 1st International Symposium, Yokohama, March 3-4, 2008.
  14. 山口雄輝，半田宏
    転写伸長因子による多面的な遺伝子制御：第１回「情報と細胞機能」研究会，松山，2008年2月15-16日．
  15. 山口雄輝，和田忠士，半田宏
    転写伸長因子による多面的な遺伝子制御：第30回日本分子生物学会年会，横浜，2007年12月11-15日．
  16. Yamaguchi, Y., Yamada, T., and Handa, H. Elongation control through dynamic phosphorylation of the C-terminal repetitive motif of Spt5. CSHL Meeting on Mechanisms of Eukaryotic Transcription, Cold Spring Harbor, NY, USA, Aug. 29-Sep. 2, 2007.
  17. Yamaguchi, Y. and Handa, H. Multifaceted gene regulation by transcription elongation factors.Tokyo Tech Special Symposium on Genes and Development, Yokohama, Japan. Aug. 2, 2007.
  18. 山口雄輝，成田央，翁茂哲，和田忠士，半田宏
    複製依存的ヒストン遺伝子の転写伸長と3’プロセシングの機能的共役
    第3回遺伝情報DECODE・冬のワークショップ，越後湯沢，2007年1月25-27日．
  19. Yamaguchi, Y., Narita, T., Yung, T.M., Yamamoto, J., Yamada, T., and Handa, H. Functional coupling between transcription and 3’-end processing of replication-dependent histone genes. The 7th EMBL Transcription Meeting, Heidelberg, Germany, Aug. 26-30, 2006.
  20. 山口雄輝，半田宏
    ナノアフィニティビーズのケミカルバイオロジーへの応用：第24回高峰カンファレンス，東京，2006年2月18-19日．
  21. 山口雄輝，山田朋子，半田宏
    転写伸長の制御とリン酸化：転写研究の新しいパラダイム?：第28回日本分子生物学会年会，福岡，2005年12月10-13日．
  22. 山口雄輝
    転写伸長の制御とリン酸化：転写研究の新しいパラダイム：第84回北海道癌談話会春季シンポジウム，札幌，2005年6月11日．
  23. Yamaguchi, Y., Yamada, T., Kamijo, S., and Handa, H. A role for Spt5 phosphorylation by P-TEFb in transcriptional elongation. ASBMB Meeting on Transcriptional Regulation by Chromatin and RNA Polymerase II, Lake Tahoe, CA, USA, Oct. 29-Nov. 1, 2004.
  24. Yamaguchi, Y., Mura, T., and Handa, H. Interaction mapping of the RNAPII/HDAg complex: implications for elongation control and viral escape. The 6th EMBL Transcription Meeting, Heidelberg, Germany, Aug. 28-Sep. 1, 2004.
  25. 山口雄輝，半田宏
    ウイルス性転写伸長因子によるRNAポリメラーゼII伸長制御の分子機構：第26回日本分子生物学会年会，神戸，2003年12月10-13日．
  26. Yamaguchi, Y. and Handa, H. Molecular mechanism of RNA polymerase II elongation control. CSHL Meeting on Mechanisms of Eukaryotic Transcription, Cold Spring Harbor, NY, USA, Aug. 27-31, 2003.
  27. Yamaguchi, Y., Narita, T., Wada, T., and Handa, H. Cellular and viral factors regulating RNA polymerase II elongation. The 75th Meeting of the Japanese Biochemical Society, Kyoto, Japan, Oct. 14-17, 2002.
  28. Yamaguchi, Y., Wada, T., and Handa, H. Interplay between positive and negative transcription elongation factors. The 5th EMBL Transcription Meeting, Heidelberg, Germany, Aug. 24-28, 2002.
  29. 山口雄輝，和田忠士，半田宏
    転写伸長反応の制御と細胞機能：第24回日本分子生物学会年会，横浜，2001年12月9-12日．
  30. Yamaguchi, Y., Filipovska, J., Wada, T., Konarska, M.M., and Handa, H. A viral transcription elongation factor: Stimulation of RNAPII elongation by hepatitis delta antigen. CSHL Meeting on Mechanisms of Eukaryotic Transcription, Cold Spring Harbor, NY, USA, Aug. 29-Sep. 2, 2001.
  31. 山口雄輝，Guo Su，和田忠士，長谷川純，Kim Dong-ki，Rosenthal Arnon，半田宏
    転写伸長因子DSIFの生物学的意義：第73回日本生化学会年会，横浜，2000年10月11-14日．
  32. Yamaguchi, Y., Hasegawa, J., Wada, T., and Handa, H. Repression of transcript elongation: Implications for the biological role. The 4th EMBL Transcription Meeting, Heidelberg, Germany, Aug. 26-30, 2000.
  33. 山口雄輝，和田忠士，長谷川純，高木敏行，半田宏
    新規転写伸長因子NELFの同定と解析：第22回日本分子生物学会年会，福岡，1999年12月7-10日．
  34. Yamaguchi, Y., Wada, T., Hasegawa, J., Takagi, T., and Handa, H. Molecular cloning and structural/functional characterization of the negative elongation factor NELF. CSHL Meeting on Mechanisms of Eukaryotic Transcription, Cold Spring Harbor, New York, USA, Sep. 1-5, 1999.
  35. 山口雄輝，和田忠士，渡辺大祐，長谷川純，高木敏行，半田宏
    薬剤DRBを用いた転写伸長反応の解析：第21回日本分子生物学会年会，横浜，1998年12月16-19日．
  36. Yamaguchi, Y., Takagi, T., Wada, T., and Handa, H. Identification of a novel factor that is involved in DRB-mediated transcription inhibition and is different from DSIF and P-TEFb. Keystone Symposia 98, Taos, New Mexico, USA, Feb. 21-26, 1998.
  37. 山口雄輝，澤田潤一，東範行，半田宏
    眼の形成に関与するPax6の転写活性化機構の解析：第20回日本分子生物学会年会，京都，1997年12月16-19日．
  38. 山口雄輝，和田忠士，高木敏行，Ferdous Anwarul，半田宏
    カゼインキナーゼIIと転写因子との相互作用の解析，第18回日本分子生物学会年会，名古屋，1995年12月6-9日．