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Selected Publications

Control Mechanisms of Genome Expression

Okuda, M., Suwa, T., Suzuki, H., Yamaguchi, Y., and Nishimura, Y. (2021) Three human RNA polymerases interact with TFIIH via a common RPB6 subunit. Nucleic Acids Res. gkab612. [Pubmed Citation]

Takahashi, H., Ranjan, A., Chen, S., Suzuki, H., Shibata, M., Hirose, T., Hirose, H., Sasaki, K., Abe, R., Chen, K., He, Y., Zhang, Y., Takigawa, I., Tsukiyama, T., Watanabe, M., Fujii, S., Iida, M., Yamamoto, J., Yamaguchi, Y., Suzuki, Y., Matsumoto, M., Nakayama, K., Washburn, M., Saraf, A., Florens, L., Sato, S., Tomomori-Sato, C., Conaway, R., Conaway, J., and Hatakeyama, S. (2020) The role of Mediator and Little Elongation Complex in transcription termination. Nat. Commun. 11, 1063. [Pubmed Citation]

Suzuki, H., Okamoto-Katsuyama, M., Suwa, T., Maeda, R., Tamura, T.-A., and Yamaguchi, Y. (2019) TLP-mediated global transcriptional repression after double-strand DNA breaks slows down DNA repair and induces apoptosis. Sci. Rep. 9, 4868. [Pubmed Citation]

Cao, Q.-F., Yamamoto, J., Isobe, T., Tateno, S., Murase, Y., Chen, Y., Handa, H., and Yamaguchi, Y. (2015) Characterization of the human transcription elongation factor Rtf1: evidence for non-overlapping functions of Rtf1 and the Paf1 complex. Mol. Cell. Biol. 35, 3459-3470. [Pubmed Citation]

Yamamoto, J., Hagiwara, Y., Chiba, K., Isobe, T., Narita, T., Handa, H., and Yamaguchi, Y. (2014) DSIF and NELF interact with Integrator to specify the correct post-transcriptional fate of snRNA genes. Nat. Commun. 5, 4263. [Pubmed Citation]

Chiba, K., Yamamoto, J., Yamaguchi, Y., and Handa, H. (2010) Promoter-proximal pausing and its release: molecular mechanisms and physiological functions. Exp. Cell Res. 316, 2723-2730. (review) [Pubmed Citation]

Chen, Y., Yamaguchi, Y., 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. [Pubmed Citation]

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. [Pubmed Citation]

Yamada, T., Yamaguchi, Y., 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. [Pubmed Citation]

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 alpha-mediated transcription through estrogen-stimulated recruitment of a negative elongation factor. Genes Dev. 18, 2134-2146. [Pubmed Citation]

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. [Pubmed Citation]

Narita, T., Yamaguchi, Y., 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. [Pubmed Citation]

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. [Pubmed Citation]

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. [Pubmed Citation]

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. [Pubmed Citation]

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. [Pubmed Citation]

Chemical Biology

Yamamoto, J., Suwa, T., Murase, Y., Tateno, S., Mizutome, H., Asatsuma-Okumura, T., Shimizu, N., Kishi, T., Momose, S., Kizaki, M., Ito, T., Yamaguchi, Y., and Handa, H. (2020) ARID2 is a pomalidomide-dependent CRL4CRBN substrate in multiple myeloma cells. Nat. Chem. Biol. 16, 1208-1217. [Pubmed Citation]

Tateno, S., Iida, M., Fujii, S., Suwa, T., Katayama, M., Tokuyama, H., Yamamoto, J., Ito, T., Sakamoto, S., Handa, H., and Yamaguchi, Y. (2020) Genome-wide screening reveals a role for subcellular localization of CRBN in the anti-myeloma activity of pomalidomide. Sci. Rep. 10, 4012. [Pubmed Citation]

Asatsuma-Okumura, T., Ando, H., De Simone, M., Yamamoto, J., Sato, T., Shimizu, N., Asakawa, K., Yamaguchi, Y., Ito, T., Guerrini, L., and Handa, H. (2019) p63 is a cereblon substrate involved in thalidomide teratogenicity. Nat. Chem. Biol. 15, 1077-1084. [Pubmed Citation]

Ando, H., Sato, T., Ito, T., Yamamoto, J., Sakamoto, S., Nitta, N., Asatsuma-Okumura, T., Shimizu, N., Mizushima, R., Aoki, I., Imai, T., Yamaguchi, Y., Berk, A.J., and Handa, H. (2019) Cereblon control of zebrafish brain size by regulation of neural stem cell proliferation. iScience 15, 95-108. [Pubmed Citation]

Sakamoto, S., Omagari, K., Kita, Y., Mochizuki, Y., Naito, Y., Kawata, S., Matsuda, S., Itano, O., Jinno, H., Takeuchi, H., Yamaguchi, Y., Kitagawa, Y., and Handa, H. (2014) Magnetically-promoted rapid immunoreactions using functionalized fluorescent magnetic beads. Clin. Chem. 60, 610-620. [Pubmed Citation]

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. [Pubmed Citation]

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. (review) [Pubmed Citation]

Others

Enomoto, T., Kukimoto, I., Kawano, M.A., Yamaguchi, Y., Berk, A.J., and Handa, H. (2011) In vitro reconstitution of SV40 particles that are composed of VP1/2/3 capsid proteins and nucleosomal DNA and direct efficient gene transfer. Virology 420, 1-9. [Pubmed Citation]

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. [Pubmed Citation]

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