研究活動
Research Activities

研究活動
Research Activities

Home › 研究活動 › 主任研究者 › 山本 拓也 准教授

主任研究者
Principal Investigators

未来生命科学開拓部門 山本 拓也 准教授

発表論文

Ito, K., Nagata, K., Ohta, S., Matsuda, Y., Ukai, T., Yasuda, I., Ota, A., Kobayashi, R., Kabata, M., Sankoda, N., Maeda, T., Woltjen, K., Yang, L., Maruyama, R., Katayama, R., Yamamoto, T. and Yamada, Y.

The oncogene-dependent resistance to reprogramming unveils cancer therapeutic targets. Cell Reports, 39, 110721 (2022)

Nalbandian, M., Zhao, M., Kato, M., Jonouchi, T., Nakajima-Koyama, M., Yamamoto, T and Sakurai, H.

Single-cell RNAseq reveals heterogeneity in hiPSC-MuPCs and E2F as a key regulator of proliferation Life Science Alliance, 5 e02101312 (2022)

Oikawa, M., Kobayashi, H., Sanbo, M., Mizuno, N., Iwatsuki, K., Takashima, T., Yamauchi, K., Yoshida, F., Yamamoto, T., Shinohara, T., Nakauchi, H., Kurimoto, K., Hirabayashi, M. and Kobayashi, T.

Functional primordial germ cell-like cells from pluripotent stem cells in rats. Science, 376, 176-179 (2022)

Oka, K., Fujioka, S., Kawamura, Y., Komohara, Y., Chujo, T., Sekiguchi, K., Yamamura, Y., Oiwa, Y., Omamiuda-Ishikawa, N., Komaki, S., Sutoh, Y., Sakurai, S., Tomizawa, K., Bono, H., Shimizu, A., Araki, K., Yamamoto, T., Yamada, Y., Oshiumi, H. and Miura, K.

Resistance to chemical carcinogenesis induction via a dampened inflammatory response in naked molerats. Commun. Biol., 5, 287 (2022)

Kozuki, S., Sakurai, S., Suzuki, A., Yamamoto, T. and Toyoshima, F.

Delineation of biliary epithelial cell dynamics in maternal liver during pregnancy. Genes Cells, 27, 192-201 (2022)

Sawada, A., Yamamoto, T. and Sato, T.

Tceal5 and Tceal7 Function in C2C12 Myogenic Differentiation via Exosomes in Fetal Bovine Serum. Int. J. Mol. Sci., 23, 2036 (2022)

Hirano, M., So, Y., Tsunekawa, S., Kabata, M., Ohta, S., Sagara, H., Sankoda, N., Taguchi, J., Yamada, Y., Ukai, T., Kato, M., Nakamura, J., Ozawa, M., Yamamoto, T. and Yamada, Y.

MYCL-mediated reprogramming expands pancreatic insulin-producing cells. Nature Metabolism, 4, 254-268 (2022)

Fujita, Y., Hirosawa, M., Hayashi, K., Hatani, T., Yoshida, Y., Yamamoto, T. and Saito, H.

A versatile and robust cell purification system with an RNA-only circuit composed of microRNA-responsive ON and OFF switches. Science Adv., 8, eabj1793 (2022)

Sato, Y., Oguchi, A., Fukushima, Y., Masuda, K., Toriu, N., Taniguchi, K., Yoshikawa, T., Cui, X., Kondo, M., Hosoi, T., Komidori, S., Shimizu, Y., Fujita, H., Jiang, L., Kong, Y., Yamanashi, T., Seita, J., Yamamoto, T., Toyokuni, S., Hamazaki, Y., Hattori, M., Yoshikai, Y., Boor, P., Floege, J., Kawamoto, H., Murakawa, Y., Minato, N. and Yanagita, M.

CD153-CD30 signaling promotes age-dependent tertiary lymphoid tissue expansion and kidney injury. J. Clin. Invest., 132, e146071 (2022)

Okamoto, I., Nakamura, T., Sasaki, K., Yabuta, Y., Iwatani, C., Tsuchiya, H., Nakamura, S., Ema, M., Yamamoto, T. and Saitou, M.

The X-chromosome dosage compensation program during the development of cynomolgus monkeys. Science, 374 eabd8887 (2021)

Yokobayashi, S., Yabuta, Y., Nakagawa, M., Okita, K., Hu, B., Murase, Y., Nakamura, T., Bourque, G., Majewski, J., Yamamoto, T. and Saitou, M.

Inherent genomic properties underlie the epigenomic heterogeneity of human induced pluripotent stem cells. Cell Reports, 37 109909 (2021)

Matsumoto, R., Yamamoto, T. and Takahashi, Y.

Complex Organ Construction from Human Pluripotent Stem Cells for Biological Research and Disease Modeling with New Emerging Techniques. Int. J. Mol. Sci., 22, 10184 (2021)

Ishikura, Y., Ohta, H., Sato, T., Murase, Y., Yabuta, Y., Kojima, Y., Yamashiro, C., Nakamura, T., Yamamoto, T., Ogawa, T. and Saitou, M.

In vitro reconstitution of the whole male germ-cell development from mouse pluripotent stem cells. Cell Stem Cell, 28, 2167-2179 (2021)

Taguchi, J., Shibata, H., Kabata, M., Kato, M., Fukuda, K., Tanaka, A., Ohta, S., Ukai, T., Mitsunaga, M., Yamada, Y., Nagaoka, S., Yamazawa, S., Ohnishi, K., Woltjen, K., Ushiku, T., Ozawa, M., Saitou, M., Shinkai, Y., Yamamoto, T. and Yamada, Y.

DMRT1-mediated reprogramming 1 drives development of cancer resembling human germ cell tumors with features of totipotency. Nature Communications, 12, 5041 (2021)

Jo, N., Zang, R., Ueno, H., Yamamoto, T., Weiskopf, D., Sette, A., Nagao, M., Yamanaka, S. and Hamazaki, Y.

Aging and CMV infection affect pre-existing SARS-CoV-2-reactive CD8+ T cells in unexposed individuals. Frontiers in Aging, 2, 719342 (2021)

Sasaki, K., Oguchi, A., Cheng, K., Murakawa, Y., Okamoto, I., Ohta, H., Yabuta, Y., Iwatani, C., Tsuchiya, H., Yamamoto, T., Seita, Y. and Saitou, M.

The embryonic ontogeny of the gonadalsomatic cells in mice and monkeys. Cell Reports, 35 109075 (2021)

Sano, E., Deguchi, S., Sakamoto, A., Mimura, N., Hirabayashi, A., Muramoto, Y., Noda, T., Yamamoto, T. and Takayama, K.

Modeling SARS-CoV-2 infection and its individual differences with ACE2-expressing human iPS cells. iScience, 24 102428 (2021)

Io, S., Kabata, M., Iemura, Y., Semi, K., Morone, N., Minagawa, A., Wang, B., Okamoto, I., Nakamura, T., Kojima, Y., Iwatani, C., Tsuchiya, H., Kaswandy, B., Kondoh, E., Kaneko, S., Woltjen, K., Saitou, M., Yamamoto, T., Mandai, M. and Takashima, Y.

Capturing Human Trophoblast Development with Naive Pluripotent Stem Cells In Vitro. Cell Stem Cell, Cell Stem Cell

Yuzuriha, A., Nakamura, S., Sugimoto, N., Kihara, S., Nakagawa, M., Yamamoto, T., Sekiguchi, K.
and Eto, K.

Extracellular laminin regulates hematopoietic potential of pluripotent stem cells through integrin β1-ILK-β-catenin-JUN axis. Stem Cell Research, 53:102287 (2021)

Yoji KojimaChika Yamashiro, Yusuke Murase, Yukihiro Yabuta, Ikuhiro Okamoto, Chizuru Iwatani, Hideaki Tsuchiya, Masataka Nakaya,Tomoyuki Tsukiyama, Tomonori Nakamura, Takuya Yamamoto, Mitinori Saitou.

GATA transcription factors, SOX17 and TFAP2C, drive the human germ-cell specification program. Life Science Alliance, 4(5):e202000974

Katagiri, N., Hitomi, H., Mae, S., Kotaka, M., Lei, L., Yamamoto, T., Nishiyama, A. and Osafune, K

Retinoic acid regulates erythropoietin production cooperatively with hypoxia-inducible factors in human iPSC-derived erythropoietin-producing cells Scientific Reports, 11(1):3936 (2021)

Ohta, H., Yabuta, Y., Kurimoto, K., Nakamura, T., Murase, Y., Yamamoto, T. and Saitou, M

Cyclosporin A and FGF signaling support the proliferation/survival of mouse primordial germ cell-like cells in vitro. Biol. Reprod 104(2):344-360 (2021)

Ichijo, R., Kabata, M., Kidoya, H., Muramatsu, F., Ishibashi, R., Abe, K., Tsutsui, K., Kubo, H., Iizuka, Y., Kitano, S., Miyachi, H., Fujiwara, H., Sada, A., Yamamoto, T. and Toyoshima, F.

Vasculature-driven stem cell population coordinates tissue scaling in dynamic organs. Science Adv., 7(7):eabd2575 (2021)

Morimoto, H., Yamamoto T., Miyazaki, T., Ogonuki, N., Ogura, A., Tanaka, T., Kanatsu-Shinohara, M., Yabe-Nishimura, C., Zhang, H., Pommier, Y., Trumpp, A. and Shinohara, T

An interplay of NOX1-derived ROS and oxygen determines the spermatogonial stem cell self-renewal efficiency under hypoxia. Genes Dev., 35(3-4):250-260 (2021)

Sankoda, N., Tanabe, W., Tanaka, A., Shibata, H., Woltjen, K., Chiba, T., Haga, H., Sakai, Y., Mandai, M., Yamamoto, T., Yamada, Y., Uemoto, S. and Kawaguchi, Y.

Epithelial expression of Gata4 and Sox2 regulates specification of the squamous-columnar junction via MAPK/ERK signaling in mice. Nature Communications, 12(1):560 (2021)

Murase, Y., Yabuta, Y., Ohta, H., Yamashiro, C., Nakamura, T., Yamamoto, T. and Saitou, M.

Long-term expansion with germline potential of human primordial germ cell-like cells in vitro. EMBO J., 39(12):e104929 (2020)

Yagi, M., Kabata, M., Tanaka, A., Ukai, T., Ohta, S., Nakabayashi, K., Shimizu, M., Hata, K., Meissner, A., Yamamoto, T. and Yamada, Y.

Genome-wide identification of distinct target loci for de novo DNA methylation by DNMT3A and DNMT3B during mammalian development. Nature Communications, 11:3199

Senoo, M., Hozoji, H., Ishikawa-Yamauchi, Y., Takijiri, T., Ohta, S., Ukai, T., Kabata, M., Yamamoto, T., Yamada, Y., Ikawa, M. and Ozawa, M.

RNA-binding protein Ptbp1 regulates alternative splicing and transcriptome in spermatogonia and maintains spermatogenesis in concert with Nanos3. J Reprod Dev., 66(5):459-467 (2020)

Matsuda, M., Yamanaka, Y., Uemura, M., Osawa, M., Saito, MK., Nagahashi, A., Nishio, M., Guo, L., Ikegawa, S., Sakurai, S., Kihara, S., Maurissen, TL., Nakamura, M., Matsumoto, M., Yoshitomi, H., Ikeya, M., Kawakami, N., Yamamoto, T., Woltjen, K., Ebisuya, M., Toguchida, J.and Alev, C.

Recapitulating the Human Segmentation Clock with Pluripotent Stem Cells. Nature, 580(7801):124-129 (2020)

Nagaoka, SI., Nakaki, F., Miyauchi, F., Nosaka, Y., Ohta, H., Yabuta, Y., Kurimoto, K., Hayashi, K., Nakamura, T., Yamamoto, T. and Saitou, M.

ZGLP1 is a determinant for the oogenic fate in mice. Science, 367:6482-eaaw4115 (2020)

Sakai, Y., Nakamura, T., Okamoto, I., Gyobu-Motani, S., Ohta, H., Yabuta, Y., Tsukiyama, T., Iwatani, C., Tsuchiya, H., Ema, M., Morizane, A., Takahashi, J., Yamamoto, T. and Saitou M.

Induction of the Germ-Cell Fate from Pluripotent Stem Cells in Cynomolgus Monkeys. Biol. Reprod., 102(3):620-638 (2020)

Arai, HN., Sato, F., Yamamoto, T., Woltjen, K., Kiyonari, H., Yoshimoto, Y., Shukunami, C., Akiyama, H., Kist, R. and Sehara-Fujisawa, A.

Metalloprotease-Dependent Attenuation of BMP Signaling Restricts Cardiac Neural Crest Cell Fate. Cell Reports, 29(3):603-616 (2019)

Sakakura, M., Ohta, S., Yagi, M., Tanaka, A., Norihide, J., Woltjen, K., Yamamoto, T., and Yamada, Y.

Smarcb1 maintains the cellular identity and the chromatin landscapes of mouse embryonic stem cells. Biochem. Biophys. Res. Commun., 519(4):705-713 (2019)

Komura, S., Ito, K., Ohta, S., Ukai, T., Kabata, M., Itakura, F., Semi, K., Matsuda, Y., Hashimoto, K., Shibata, H., Sone, M., Jo, N., Sekiguchi, K., Ohno, T., Akiyama, H., Shimizu, K., Woltjen, K., Ozawa, M., Toguchida, J., Yamamoto, T. and Yamada, Y.

Cell-type dependent enhancer binding of the EWS/ATF1 fusion gene in clear cell. Nature Communications, 10:3999 (2019)

Kanatsu-Shinohara, M., Yamamoto, T., Toh, H., Kazuki, Y., Kazuki, K., Imoto, J., Ikeo, K., Oshima, M., Shirahige, K., Iwama, A., Nabeshima, Y., Sasaki, H. and Shinohara, T.

Aging of spermatogonial stem cells by Jnk-mediated glycolysis activation. Proc. Natl. Acad. Sci. U. S. A, 116:16404-15409 (2019)

Sato, T., Higashioka, K., Sakurai, H., Yamamoto, T., Goshima, N., Ueno, M. and Sotozono, C.

Core Transcription Factors Promote Induction of PAX3-Positive Skeletal Muscle Stem Cells. Stem Cell Reports, 13:352-365 (2019)

Yagi, M., Kabata, M., Ukai, T., Tanaka, A., Shimada, Y., Sugimoto, M., Araki, K., Okita, K., Woltjen, K., Hochedlinger, K., Yamamoto, T. and Yamada, Y.

De novo DNA methylation at imprinted loci during reprogramming into naïve and primed pluripotency. Stem Cell Reports, 13:1113-1128 (2019)

Morimoto, H., Kanastu-Shinohara, M., Ogonuki, N., Kamimura, S., Ogura, A., Yabe-Nishimura, C., Mori, Y., Morimoto, T., Watanabe, S., Otsu, K., Yamamoto, T. and Shinohara, T.

ROS amplification drives mouse spermatogonial stem cell self-renewal. Life Science Alliance, 2:e201900374 (2019)

Terada Y, Jo N, Arakawa Y, Sakakura M, Yamada Y, Ukai T, Kabata M, Mitsunaga K, Mineharu Y, Ohta S, Nakagawa M, Miyamoto S, Yamamoto T, Yamada Y.

Human Pluripotent Stem Cell-Derived Tumor Model Uncovers the Embryonic Stem Cell Signature as a Key Driver in Atypical Teratoid/Rhabdoid Tumor. Cell Reports, 26(10):2608-2621 (2019)

Hirata K, Kodama S, Nakano Y, Minaki-Nakagawa Y, Aoyama Y, Sakikubo M, Goto T, Yoshida M, Masui T, Yamamoto T, Uemoto S, Kawaguchi Y.

Exocrine tissue-driven TFF2 prevents apoptotic cell death of endocrine lineage during pancreas organogenesis. Scientific Reports, 9:1636 (2019)

Matsui S, Ochiai M, Yasuda K, Mae SI, Kotaka M, Toyoda T, Yamamoto T, Osafune K.

Differentiation and isolation of iPSC-derived remodeling ductal plate-like cells by use of an AQP1-GFP reporter human iPSC line. Stem Cell Research, 35:101400 (2019)

Kagawa H, Shimamoto R, Kim SI, Oceguera-Yanez F, Yamamoto T, Schroeder T, Woltjen K.

OVOL1 Influences the Determination and Expansion of iPSC Reprogramming Intermediates. Stem Cell Reports, 12(2):319-332 (2019)

Yamashiro C, Sasaki K, Yabuta Y, Kojima Y, Nakamura T, Okamoto I, Yokobayashi S, Murase Y, Ishikura Y, Shirane K, Sasaki H, Yamamoto T, Saitou M.

Generation of human oogonia from induced pluripotent stem cells in vitro. Science, 362(641):356-360 (2018)

Seo H, Chen SJ, Hashimoto K, Endo H, Nishi Y, Ohta A, Yamamoto T, Hotta A, Sawaguchi A, Hayashi H, Koseki N, Murphy GJ, Fukuda K, Sugimoto N, Eto K.

A β1-tubulin-based megakaryocyte maturation reporter system identifies novel drugs that promote platelet production. Blood Advances, 2(17):2262-2272 (2018)

Ito Y, Nakamura S, Sugimoto N, Shigemori T, Kato Y, Ohno M, Sakuma S, Ito K, Kumon H, Hirose H, Okamoto H, Nogawa M, Iwasaki M, Kihara S, Fujio K, Matsumoto T, Higashi N, Hashimoto K, Sawaguchi A, Harimoto KI, Nakagawa M, Yamamoto T, Handa M, Watanabe N, Nishi E, Arai F, Nishimura S, Eto K.

Turbulence Activates Platelet Biogenesis to Enable Clinical Scale Ex Vivo Production. Cell, 174(3):636-648 (2018)

Ikeda T, Hikichi T, Miura H, Shibata H, Mitsunaga K, Yamada Y, Woltjen K, Miyamoto K, Hiratani I, Yamada Y, Hotta A, Yamamoto T, Okita K, Masui S.

Srf destabilizes cellular identity by suppressing cell-type-specific gene expression programs. Nature Communications, 9:2081 (2018)

Honjoh S, Ihara A, Kajiwara Y, Yamamoto T, Nishida E.

The Sexual Dimorphism of Dietary Restriction Responsiveness in Caenorhabditis elegans. Cell Reports, 21(13):3646-3652 (2017)

Mitani T, Yabuta Y, Ohta H, Nakamura T, Yamashiro C, Yamamoto T, Saitou M, Kurimoto K.

Principles for the regulation of multiple developmental pathways by a versatile transcriptional factor, BLIMP1. Nucleic Acids Res., 45(21):12152-12169 (2017)

Ikeda H, Sone M, Yamanaka S, Yamamoto T.

Structural and spatial chromatin features at developmental gene loci in human pluripotent stem cells. Nature Communications, 8:1616 (2017)

Miyauchi H, Ohta H, Nagaoka S, Nakaki F, Sasaki K, Hayashi K, Yabuta Y, Nakamura T, Yamamoto T, Saitou M.

Bone morphogenetic protein and retinoic acid synergistically specify female germ-cell fate in mice. The EMBO Journal, 8:1616 (2017)

Kojima Y, Sasaki K, Yokobayashi S, Sakai Y, Nakamura T, Yabuta Y, Nakaki F, Nagaoka S, Woltjen K, Hotta A, Yamamoto T, Saitou M.

Evolutionarily Distinctive Transcriptional and Signaling Programs Drive Human Germ Cell Lineage Specification from Pluripotent Stem Cells. Cell Stem Cell, 21(4):517-532 (2017)

Matsuzono K, Imamura K, Murakami N, Tsukita K, Yamamoto T, Izumi Y, Kaji R, Ohta Y, Yamashita T, Abe K, Inoue H.

Antisense Oligonucleotides Reduce RNA Foci in Spinocerebellar Ataxia 36 Patient iPSCs. Mol Ther Nucleic Acids., 8:211-219 (2017)

Kitani-Morii F, Imamura K, Kondo T, Ohara R, Enami T, Shibukawa R, Yamamoto T, Sekiguchi K, Toguchida J, Mizuno T, Nakagawa M, Inoue H.

Analysis of neural crest cells from Charcot-Marie-Tooth disease patients demonstrates disease-relevant molecular signature. NeuroReport, 28(13):814-821 (2017)

Yagi M, Kishigami S, Tanaka A, Semi K, Mizutani E, Wakayama S, Wakayama T, Yamamoto T, Yamada Y.

Derivation of ground-state female ES cells maintaining gamete-derived DNA methylation. Nature, 548(7666):224-227 (2017)

Ohta H, Kurimoto K, Okamoto I, Nakamura T, Yabuta Y, Miyauchi H, Yamamoto T, Okuno Y, Hagiwara M, Shirane K, Sasaki H, Saitou M.

In vitro expansion of mouse primordial germ cell-like cells recapitulates an epigenetic blank slate. The EMBO Journal, 36(13):1888-1907 (2017)

Imajo M, Kondoh K, Yamamoto T, Nakayama K, Nakajima-Koyama M, Nishida E.

Antagonistic Interactions between Extracellular Signal-Regulated Kinase Mitogen-Activated Protein Kinase and Retinoic Acid Receptor Signaling in Colorectal Cancer Cells. Mol Cell Biol., 37(15):e00012-17 (2017)

Yokobayashi S, Okita K, Nakagawa M, Nakamura T, Yabuta Y, Yamamoto T, Saitou M.

Clonal variation of human induced pluripotent stem cells for induction into the germ cell fate. Biology of Reproduction, 96(6):1154-1166 (2017)

Imamura K, Izumi Y, Watanabe A, Tsukita K, Woltjen K, Yamamoto T, Hotta A, Kondo T, Kitaoka S, Ohta A, Tanaka A, Watanabe D, Morita M, Takuma H, Tamaoka A, Kunath T, Wray S, Furuya H, Era T, Makioka K, Okamoto K, Fujisawa T, Nishitoh H, Homma K, Ichijo H, Julien JP, Obata N, Hosokawa M, Akiyama H, Kaneko S, Ayaki T, Ito H, Kaji R, Takahashi R, Yamanaka S, Inoue H.

The Src/c-Abl pathway is a potential therapeutic target in amyotrophic lateral sclerosis. Science Translational Medicine, 9(391):eaaf3962 (2017)

Sone, M., Morone, N., Nakamura, T., Tanaka, A., Okita, K., Woltjen, K., Nakagawa, M., Heuser, JE., Yamada, Y., Yamanaka, S. and Yamamoto, T.

Hybrid Cellular Metabolism Coordinated by Zic3 and Esrrb Synergistically Enhances Induction of Naive Pluripotency. Cell Metabolism 25, 1103-1117 (2017)

Honda, A., Kawano, Y., Izu, H., Choijookhuu, N., Honsho, K., Nakamura, T., Yabuta, Y., Yamamoto, T., Takashima, Y., Hirose, M., Sankai, T., Hishikawa, Y., Ogura, A. and Saitou, M.

Discrimination of Stem Cell Status after Subjecting Cynomolgus Monkey Pluripotent Stem Cells to Naive Conversion. Scientific Reports 7, 45285 (2017)

Murakami, N., Imamura, K., Izumi, Y., Egawa, N., Tsukita, K., Enami, T., Yamamoto, T., Kawarai, T., Kaji, R. and Inoue, H.

Proteasome impairment in neural cells derived from HMSN-P patient iPSCs. Mol. Brain 10, 7 (2017)

Ashida, Y., Nakajima-Koyama, M., Hirota, A., Yamamoto, T. and Nishida, E.

Activin A in combination with ERK1/2 MAPK pathway inhibition sustains propagation of mouse embryonic stem cells. Genes Cells 22, 189-202 (2017)

Hashimoto, K., Yamada, Y., Semi, K., Yagi, M., Tanaka, A., Itakura, F., Aoki, H., Kunisada, T., Woltjen, K., Haga, H., Sakai, Y., Yamamoto, T. and Yamada, Y.

Cellular context-dependent consequences of Apc mutations on gene regulation and cellular behavior. Proc. Natl. Acad. Sci. U. S. A. 114, 758-763 (2017)

Sugiyama, H., Takahashi, K., Yamamoto, T., Iwasaki, M., Narita, M., Nakamura, M., Rand, TA., Nakagawa, M., Watanabe, A. and Yamanaka, S.

Nat1 promotes translation of specific proteins that induce differentiation of mouse embryonic stem cells. Proc. Natl. Acad. Sci. U. S. A. 114, 340-345 (2017)

Ishikura, Y., Yabuta, Y., Ohta, H., Hayashi, K., Nakamura, T., Okamoto, I., Yamamoto, T., Kurimoto, K., Shirane, K., Sasaki, H. and Saitou, M.

In Vitro Derivation and Propagation of Spermatogonial Stem Cell Activity from Mouse Pluripotent Stem Cells. Cell Reports 17, 2789-2804 (2016)

Hirano, Y., Ihara, K., Masuda, T., Yamamoto, T., Iwata, I., Takahashi, A., Awata, H., Nakamura, N., Takakura, M., Suzuki, Y., Horiuchi, J., Okuno, H. and Saitoe M.

Shifting transcriptional machinery is required for long-term memory maintenance and modification in Drosophila mushroom bodies. Nature Commun. 7, 13471 (2016)

Sasaki, K., Nakamura, T., Okamoto, I., Yabuta, Y., Iwatani, C., Tsuchiya, H., Seita, Y., Nakamura, S., Shiraki, N., Takakuwa, T., Yamamoto, T. and Saitou, M.

The Germ Cell Fate of Cynomolgus Monkeys Is Specified in the Nascent Amnion. Dev. Cell 39, 169-185 (2016)

Nakamura, T., Okamoto, I., Sasaki, K., Yabuta, Y., Iwatani, C., Tsuchiya, H., Seita, Y., Nakamura, S., Yamamoto, T. and Saitou, M.

A developmental coordinate of pluripotency among mice, monkeys, and humans. Nature 537, 57-62 (2016)

Ameku, T., Taura, D., Sone, M., Numata, T., Nakamura, M., Shiota, F., Toyoda, T., Matsui, S., Araoka, T., Yasuno, T., Mae, S., Kobayashi, H., Kondo, N., Kitaoka, F., Amano, N., Arai, S., Ichisaka, T., Matsuura, N., Inoue, S., Yamamoto, T., Takahashi, K., Asaka, I., Yamada, Y., Ubara, Y., Muso, E., Fukatsu, A., Watanabe, A., Sato, Y., Nakahata, T., Mori, Y., Koizumi, A., Nakao, K., Yamanaka, S. and Osafune, K.

Identification of MMP1 as a novel risk factor for intracranial aneurysms in ADPKD using iPSC models. Scientific Reports 6, 30013 (2016)

Komura, S., Semi, K., Itakura, F., Shibata, H., Ohno, T., Hotta, A., Woltjen, K., Yamamoto, T., Akiyama, H. and Yamada, Y.

An EWS-FLI1-Induced Osteosarcoma Model Unveiled a Crucial Role of Impaired Osteogenic Differentiation on Osteosarcoma Development. Stem Cell Reports 6, 592-606 (2016)

Nakajima-Koyama, M., Lee, J., Ohta, S., Yamamoto, T. and Nishida, E.

Induction of Pluripotency in Astrocytes through a Neural Stem Cell-Like State. J. Biol. Chem. 290, 31173-31188 (2015)

Yamashiro, C., Hirota, T., Kurimoto, K., Nakamura, T., Yabuta, Y., Nagaoka, SI., Ohta, H., Yamamoto, T. and Saitou, M.

Persistent Requirement and Alteration of the Key Targets of PRDM1 During Primordial Germ Cell Development in Mice. Biol. Reprod. 94, 7 (2015)

Lee, J., Nakajima-Koyama, M., Sone, M., Koga, M., Ebisuya, M., Yamamoto, T. and Nishida, E.

Secreted Ephrin Receptor A7 Promotes Somatic Cell Reprogramming by Inducing ERK Activity Reduction. Stem Cell Reports 5, 480-489 (2015)

Sasaki, K., Yokobayashi, S., Nakamura, T., Okamoto, I., Yabuta, Y., Kurimoto, K., Ohta, H., Moritoki, Y., Iwatani, C., Tsuchiya, H., Nakamura, S., Sekiguchi, K., Sakuma, T., Yamamoto, T., Mori, T., Woltjen, K., Nakagawa, M., Yamamoto, T., Takahashi, K., Yamanaka, S. and Saitou M.

Robust In Vitro Induction of Human Germ Cell Fate from Pluripotent Stem Cells. Cell Stem Cell 17, 178-194 (2015)

Kurimoto, K., Yabuta, Y., Hayashi, K., Ohta, H., Kiyonari, H., Mitani, T., Moritoki, Y., Kohri, K., Kimura, H., Yamamoto, T., Katou, Y., Shirahige, K. and Saitou, M.

Quantitative Dynamics of Chromatin Remodeling during Germ Cell Specification from Mouse Embryonic Stem Cells. Cell Stem Cell 16, 517-532 (2015)

Kim, S-I., Oceguera-Yanez, F., Hirohata, R., Linker, S., Okita, K., Yamada, Y., Yamamoto, T., Yamanaka, S. and Woltjen, K.

KLF4 N-terminal variance modulates induced reprogramming to pluripotency. Stem Cell Reports  4, 727-743 (2015)

Matsumoto, Y., Ikeya, M., Hino, K., Horigome, K, Fukuta, M., Watanabe, M., Nagata, S., Yamamoto, T., Otsuka, T. and Toguchida, J.

New protocol to optimize iPS cells for genome analysis of fibrodysplasia ossificans progressiva. Stem Cells 33, 1730-1742 (2015)

Nakamura, T., Yabuta, Y., Okamoto, I., Aramaki, S., Yokobayashi, S., Kurimoto, K., Sekiguchi, K., Nakagawa, M., Yamamoto, T. and Saitou, M.

SC3-seq: a method for highly parallel and quantitative measurement of single-cell gene expression. Nucleic Acids Res. 43, e60 (2015)

Fukuta, M., Nakai, Y., Kirino, K., Nakagawa, M., Sekiguchi, K., Nagata, S., Matsumoto, Y., Yamamoto, T., Umeda, K., Heike, T., Okumura, N., Koizumi, N., Sato, T., Nakahata, T., Saito, M., Otsuka, T., Kinoshita, S., Ueno, M., Ikeya, M. and Toguchida, J.

Derivation of mesenchymal stromal cells from pluripotent stem cells through a neural crest lineage using small molecule compounds with defined media. PLoS One 9, e112291 (2014)

Sato, T., Yamamoto, T. and Sehara-Fujisawa, A.

miR-195/497 induce postnatal quiescence of skeletal muscle stem cells. Nature Commun. 5, 4597 (2014)

Ohnishi, K., Semi, K., Yamamoto, T., Shimizu, M., Tanaka, A., Mitsunaga, K., Okita, K., Osafune, K., Arioka, Y., Maeda, T., Soejima, H., Moriwaki, H., Yamanaka, S., Woltjen, K. and Yamada, Y.

Premature termination of reprogramming in vivo leads to cancer development through altered epigenetic regulation. Cell 156, 663-677 (2014)

Ohta, S., Nishida, E., Yamanaka, S. and Yamamoto, T.

Global splicing pattern reversion during somatic cell reprogramming. Cell Reports 5, 357-366 (2013)

Sakai, H., Sato, T., Sakurai, H., Yamamoto, T., Hanaoka, K., Montarras, D. and Sehara-Fujisawa, A.

Fetal skeletal muscle progenitors have regenerative capacity after intramuscular engraftment in dystrophin deficient mice. PLoS One 8, e63016 (2013)

Tanaka, A., Woltjen, K., Miyake, K., Hotta, A., Ikeya, M., Yamamoto, T., Nishino, T., Shoji, E., Sehara-Fujisawa, A., Manabe, Y., Fujii, N., Hanaoka, K., Era, T., Yamashita, S., Isobe, K., Kimura, E. and Sakurai, H.

Efficient and reproducible myogenic differentiation from human iPS cells: prospects for modeling Miyoshi Myopathy in vitro. PLoS One 8, e61540 (2013)

Hikichi, T., Matoba, R., Ikeda, T., Watanabe, A., Yamamoto, T., Yoshitake, S., Tamura-Nakano, M., Kimura, T., Kamon, M., Shimura, M., Kawakami, K., Okuda, A., Okochi, H., Inoue, T., Suzuki, A. and Masui, S.

Transcription factors interfering with dedifferentiation induce cell type-specific transcriptional profiles. Proc. Natl. Acad. Sci. U. S. A. 110, 6412-6417 (2013)

Nasu, A., Ikeya, M., Yamamoto, T., Watanabe, A., Jin, Y., Matsumoto, Y., Hayakawa, K., Amano, N., Sato, S., Osafune, K., Aoyama, T., Nakamura, T., Kato, T. and Toguchida, J.

Genetically matched human iPS cells reveal that propensity for cartilage and bone differentiation differs with clones, not cell type of origin. PLoS One 8, e53771 (2013)

Hirata, A., Utikal, J., Yamashita, S., Aoki, H., Watanabe, A., Yamamoto, T., Okano, H., Bardeesy, N., Kunisada, T., Ushijima, T., Hara, A., Jaenisch, R., Hochedlinger, K. and Yamada Y.

Dose-dependent roles for canonical Wnt signalling in de novo crypt formation and cell cycle properties of the colonic epithelium.Development 140, 66-75 (2013)

Uno, M., Honjoh, S., Matsuda, M., Hoshikawa, H., Kishimoto, S., Yamamoto, T., Ebisuya, M., Yamamoto, T., Matsumoto, K. and Nishida, E.

A fasting-responsive signaling pathway that extends life span in C. elegans.Cell Reports 3, 79-91 (2013)

Minami, I., Yamada, K., Otsuji, T.G., Yamamoto, T., Shen, Y., Otsuka, S., Kadota, S., Morone N., Barve, M., Asai, Y., Tenkova-Heuser, T., Heuser, E.J., Uesugi, M., Aiba, A. and Nakatsuji, N.

A novel small molecule that promotes cardiac differentiation of human pluripotent stem cells under defined, cytokine- and xeno-free conditions.Cell Reports 2, 1-13 (2012)

Egawa, N., Kitaoka, S., Tsukita, K., Naitoh, M., Takahashi, K., Yamamoto, T., Adachi, F., Kondo, T., Okita, K., Asaka, I., Aoi, T., Watanabe, A., Yamada, Y., Morizane, A., Takahashi, J., Ayaki, T., Ito, H., Yoshikawa, K., Yamawaki, S., Suzuki, S., Watanabe, D., Hioki, H., Kaneko, T., Makioka, K., Okamoto, K., Takuma, H., Tamaoka, A., Hasegawa, K., Nonaka, T., Hasegawa, M., Kawata, A., Yoshida, M., Nakahata, T., Takahashi, R., Marchetto, M.C., Gage, F.H., Yamanaka, S. and Inoue H.

Drug screening for ALS using patient-specific induced pluripotent stem cells.Science Transl. Med. 4, 145ra104 (2012)

Tanaka, T., Takahashi, K., Yamane, M., Tomida, S., Nakamura, S., Oshima, K., Niwa, A., Nishikomori, R., Kambe, N., Hara, H., Mitsuyama, M., Morone, N., Heuser, E.J., Yamamoto, T., Watanabe, A., Sato-Otsubo, A., Ogawa, S., Asaka, I., Heike, T., Yamanaka, S., Nakahata, T. and Saito, M. K.

Induced pluripotent stem cells from CINCA syndrome patients as a model for dissecting somatic mosaicism and drug discovery.Blood 120, 1299-1308 (2012)

Matsumura, S., Hamasaki, M., Yamamoto, T., Ebisuya, M., Sato, M., Nishida, E. and Toyoshima, F.

ABL1 regulates spindle orientation in adherent cells and mammalian skin.Nature Communications 3, 626 (2012)

Sunadome, K., Yamamoto, T., Ebisuya, M., Kondoh, K., Sehara-Fujisawa, A., and Nishida, E.

ERK5 Regulates Muscle Cell Fusion through Klf Transcription Factors. Dev. Cell 20, 192-205 (2011)

Endo, T., Kusakabe, M., Sunadome, K., Yamamoto, T. and, Nishida E.

The Kinase SGK1 in the Endoderm and Mesoderm Promotes Ectodermal Survival by Down-Regulating Components of the Death-Inducing Signaling Complex. Science Signal 4, ra2 (2011)

Mitsushima, M., Aoki, A., Ebisuya, S., Matsumura, S., Yamamoto, T., Matsuda, M., Toyoshima, F., and Nishida, E.

Revolving movement of a dynamic cluster of actin filaments during mitosis. J. Cell Biol 191, 453-462 (2010)

Akashi, M., Soma, H., Yamamoto, T., Tsugitomi, A., Yamashita, S., Yamamoto, T., Nishida, E., Yasuda, A., Liao, JK., and Node, K.

Noninvasive method for assessing the human circadian clock using hair follicle cells. Proc. Natl. Acad. Sci. 107, 15643-15648 (2010)

Honjoh, S., Yamamoto, T., Uno, M., and Nishida, E.

Signalling through Rheb mediates intermittent fasting-induced longevity in C. elegans.Nature 457, 726-730 (2009)

Ebisuya, M., Yamamoto, T., Nakajima, M., and Nishida, E.

Ripples from neighbouring transcription.Nature Cell Biol. 10, 1106-1113 (2008)

Maekawa, M., Yamamoto, T., Kohno, M., Takeichi, M., and Nishida, E.

Requirement for ERK MAP kinase in mouse preimplantation development. Development 134, 2751-2759 (2007)

Yamamoto, T., Ebisuya, M., Ashida, F., Okamoto, K., Yonehara, S. and Nishida, E.

Continuous ERK activation downregulates antiproliferative genes throughout G1 phase to allow cell-cycle progression. Curr. Biol. 16:1171-1182 (2006)

Torii, S., Yamamoto, T., Tsuchiya, Y. and Nishida E.

ERK MAP kinase in G1 cell cycle progression and cancer. Cancer Science 97:697-702 (2006)

Maekawa M., Yamamoto T., Tanoue T., Yuasa Y., Chisaka O., and Nishida E.

Requirement of the MAP kinase signaling pathways for mouse preimplantation development. Development 132, 1773-1783 (2005)

Torii, S., Nakayama, K., Yamamoto, T. and Nishida E.

Regulatory mechanisms and function of ERK MAP kinases. J Biochem. 136:557-561 (2004)

Torii S., Kusakabe M., Yamamoto T., Maekawa M., and Nishida E.

Sef is a spatial regulator for Ras/MAP kinase signaling.Dev. Cell 7:33-44 (2004)

Maekawa M., Yamamoto T., and Nishida E.

Regulation of subcellular localization of the antiproliferative protein Tob by its nuclear export signal and bipartite nuclear localization signal sequences. Exp. Cell Res. 295:59-65 (2004)

Tanoue T., Yamamoto T., and Nishida E.

Modular structure of a docking surface on MAPK phosphatases. J. Biol. Chem. 277:22942-22949 (2002)

Tanoue T., Yamamoto T., Maeda R., and Nishida E.

A novel MAPK phosphatase MKP-7 acts preferentially on JNK/SAPK and p38alpha and beta MAPKs. J. Biol. Chem. 276:26629-26639 (2001)
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