Naka lab

CiRA, Kyoto Univ.

メニュー

発表論文リスト

2019

  • Removal of Interference MS/MS Spectra for Accurate Quantification in Isobaric Tag-Based Proteomics.
    Iwasaki M, Tabata T, Kawahara Y, Ishihama Y, Nakagawa M
    Journal of proteome research 2019年5月
  • Human Pluripotent Stem Cell-Derived Tumor Model Uncovers the Embryonic Stem Cell Signature as a Key Driver in Atypical Teratoid/Rhabdoid Tumor.
    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
    Cell reports 26(10) 2608-2621.e6 2019年3月
  • Induced Pluripotent Stem Cells and Their Use in Human Models of Disease and Development.
    Karagiannis P, Takahashi K, Saito M, Yoshida Y, Okita K, Watanabe A, Inoue H, Yamashita JK, Todani M, Nakagawa M, Osawa M, Yashiro Y, Yamanaka S, Osafune K
    Physiological reviews 99(1) 79-114 2019年1月

2018

  • Derivation of induced pluripotent stem cells in Japanese macaque (Macaca fuscata).
    Nakai R, Ohnuki M, Kuroki K, Ito H, Hirai H, Kitajima R, Fujimoto T, Nakagawa M, Enard W, Imamura M
    Scientific reports 8(1) 12187 2018年8月
  • Turbulence Activates Platelet Biogenesis to Enable Clinical Scale Ex Vivo Production.
    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
    Cell 174(3) 636-648.e18 2018年7月
  • Repurposing the Cord Blood Bank for Haplobanking of HLA-Homozygous iPSCs and Their Usefulness to Multiple Populations.
    Lee S, Huh JY, Turner DM, Lee S, Robinson J, Stein JE, Shim SH, Hong CP, Kang MS, Nakagawa M, Kaneko S, Nakanishi M, Rao MS, Kurtz A, Stacey GN, Marsh SGE, Turner ML, Song J
    Stem cells (Dayton, Ohio) 2018年7月
  • 中川 誠人
    iPS細胞誘導におけるMYCの機能(特集:再発見!MYCの多機能性).
    実験医学, 36, 534–538, (2018)

2017

  • iPSC-Based Compound Screening and In Vitro Trials Identify a Synergistic Anti-amyloid β Combination for Alzheimer’s Disease.
    Kondo T, Imamura K, Funayama M, Tsukita K, Miyake M, Ohta A, Woltjen K, Nakagawa M, Asada T, Arai T, Kawakatsu S, Izumi Y, Kaji R, Iwata N, Inoue H
    Cell reports 21(8) 2304-2312 2017年11月
  • Artificial acceleration of mammalian cell reprogramming by bacterial proteins.
    Ikeda T, Uchiyama I, Iwasaki M, Sasaki T, Nakagawa M, Okita K, Masui S
    Genes to cells : devoted to molecular & cellular mechanisms 22(10) 918-928 2017年10月
  • Kikuchi, T., Morizane, A., Doi, D., Magotani, H., Onoe, H., Hayashi, T., Mizuma, H., Takara, S., Takahashi, R., Inoue, H., Morita, S., Yamamoto, M., Okita, K., Nakagawa, M., Parmar, M. & Takahashi, J.
    Human iPS cell-derived dopaminergic neurons function in a primate Parkinson’s disease model.
    Nature, 548, 592–596, (2017)., doi:10.1038/nature23664
  • Kikuchi, T., Morizane, A., Doi, D., Okita, K., Nakagawa, M., Yamakado, H., Inoue, H., Takahashi, R. & Takahashi, J
    Idiopathic Parkinson’s disease patient-derived induced pluripotent stem cells function as midbrain dopaminergic neurons in rodent brains.
    J Neurosci Res, 95, 1829–1837, (2017)., doi:10.1002/jnr.24014
  • Kuang, Y., Miki, K., Parr, C. J. C., Hayashi, K., Takei, I., Li, J., Iwasaki, M., Nakagawa, M., Yoshida, Y. & Saito
    Efficient, Selective Removal of Human Pluripotent Stem Cells via Ecto-Alkaline Phosphatase-Mediated Aggregation of Synthetic Peptides.
    Cell Chem Biol, 24, 685–694 (e684), (2017)., doi:10.1016/j.chembiol.2017.04.010
  • Masamitsu Sone, Nobuhiro Morone, Tomonori Nakamura, Akito Tanaka, Keisuke Okita, Knut Woltjen, Masato Nakagawa, John E Heuser, Yasuhiro Yamada, Shinya Yamanaka and Takuya Yamamoto,.
    Hybrid Cellular Metabolism Coordinated by Zic3 and Esrrb Synergistically Enhances Induction of Naive Pluripotency.
    Cell Metabolism, 25(5), 1103–1117.e6, (2017).
  • Sugiyama, H., Takahashi, K., Yamamoto, T., Iwasaki, M., Narita, M., Nakamura, M., Rand, T. A., Nakagawa, M., Watanabe, A. & 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, doi:10.1073/pnas.1617234114 (2017).

2016

  • Masato NakagawaPeter KaragiannisShinya Yamanaka
    When Myc’s asleep, embryonic stem cells are dormant.
    EMBO. 2016. 35. 801-802.  doi:10.15252/embj.201694095
  • Kim, S. I., Oceguera-Yanez, F., Sakurai, C., Nakagawa, M., Yamanaka, S. & Woltjen, K. Inducible Transgene Expression in Human iPS Cells Using Versatile All-in-One piggyBac Transposons. Methods Mol Biol 1357, 111-131, doi:10.1007/7651_2015_251 (2016).

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. & Saitou, M.
    Robust In Vitro Induction of Human Germ Cell Fate from Pluripotent Stem Cells.
    Cell Stem Cell. 2015. doi:10.1016/j.stem.2015.06.014
  • Nakamura, T., Yabuta, Y., Okamoto, I., Aramaki, S., Yokobayashi, S., Kurimoto, K., Sekiguchi, K., Nakagawa, M., Yamamoto, T. & Saitou, M.
    SC3-seq: a method for highly parallel and quantitative measurement of single-cell gene expression.
    Nucleic Acids Res. 2015. 43, e60, doi:10.1093/nar/gkv134
  • Kim, S. I., Oceguera-Yanez, F., Sakurai, C., Nakagawa, M., Yamanaka, S. & Woltjen, K.
    Transgene Expression in Human iPS Cells Using Versatile All-in-One piggyBac Transposons.
    Methods Mol Biol. 2015. doi:10.1007/7651_2015_251
  • Samata B, Kikuchi T, Miyawaki Y, Morizane A, Mashimo T, Nakagawa M, Okita K,
    Takahashi J.
    X-linked severe combined immunodeficiency (X-SCID) rats for
    xeno-transplantation and behavioral evaluation.
    J Neurosci Methods. 2015 Mar 30;243:68-77. doi: 10.1016/j.jneumeth.2015.01.027. Epub 2015 Feb 4. PubMed PMID: 25662444.

2014

  • 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, 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. 2014 Dec 2;9(12):e112291. doi: 10.1371/journal.pone.0112291. eCollection 2014. PubMed PMID: 25464501; PubMed Central PMCID: PMC4251837.
  • Nao Hirata, Masato Nakagawa, Yuto Fujibayashi, Kaori Yamauchi, Asako Murata, Itsunari Minami, Maiko Tomioka, Takayuki Kondo, Ting-Fang Kuo, Hiroshi Endo, Haruhisa Inoue3, Shin-ichi Sato1,2, Shin Ando1,2, Yoshinori Kawazoe, Kazuhiro Aiba, Koh Nagata, Eihachiro Kawase, Young-Tae Chang6,, Hirofumi Suemori, Koji Eto, Hiromitsu Nakauchi, Shinya Yamanaka, Norio Nakatsuji, Kazumitsu Ueda, and Motonari Uesugi
    A Chemical Probe that Labels Human Pluripotent Stem Cells.
    Cell Reports | Published Online 7 March 2014  doi: 10.1016/j.celrep.2014.02.006
  • Daisuke Doi, Bumpei Samata, Mitsuko Katsukawa, Tetsuhiro Kikuchi, Asuka Morizane, Yuichi Ono, Kiyotoshi Sekiguchi, Masato Nakagawa, Malin Parmar, and Jun Takahashi
    Isolation of Human Induced Pluripotent Stem Cell-Derived Dopaminergic Progenitors by Cell Sorting for Successful Transplantation.
    Stem Cell Reports 2014 March 06 doi: 10.1016/j.stemcr.2014.01.013
  • Nakagawa M, Taniguchi Y, Senda S, Takizawa N, Ichisaka T, Asano K, Morizane A, Doi D, Takahashi J, Nishizawa M, Yoshida Y, Toyoda T, Osafune K, Sekiguchi K, YamanakaS.
    A novel efficient feeder-free culture system for the derivation of human induced pluripotent stem cells.
    Scientific Reports 2014 Jan 8;4:3594. doi: 10.1038/srep03594

2010~2013

  • Yamana R, Iwasaki M, Wakabayashi M, Nakagawa M, Yamanaka S. & Ishihama Y.
    Rapid and deep profiling of human induced pluripotent stem cell proteome by one-shot NanoLC-MS/MS analysis with meter-scale monolithic silica columns.
    Journal of proteome research 2013 Jan 4;12(1):214-21. doi: 10.1021/pr300837u. Epub 2012 Dec 4.
  • Wang YC, Nakagawa M, Garitaonandia I, Slavin I, Altun G, Lacharite RM, Nazor KL, Tran HT, Lynch CL, Leonardo TR, Liu Y, Peterson SE, Laurent LC, Yamanaka S, & Loring JF
    Specific lectin biomarkers for isolation of human pluripotent stem cells identified through array-based glycomic analysis.
    Cell Res. 2011
  • Nakamura T, Nakagawa M, Ichisaka T, Shiota A, & Yamanaka S
    Essential roles of ECAT15-2/Dppa2 in functional lung development.
    Mol Cell Biol. 2011
  • Hirano K, Nagata S, Yamaguchi S, Nakagawa M, Okita K, Kotera H, Ainscough J, & Tada T
    Human and Mouse Induced Pluripotent Stem Cells Are Differentially Reprogrammed in response to Kinase Inhibitors.
    Stem Cells Dev. 2011
  • Okita K, Matsumura Y, Sato Y, Okada A, Morizane A, Okamoto S, Hong H, Nakagawa M, Tanabe K, Tezuka KI, Shibata T, Kunisada T, Takahashi M, Takahashi J, Saji H, Yamanaka S.
    A more efficient method to generate integration-free human iPS cells.
    Nat Methods. 2011
  • Fujiwara M, Yan P, Otsuji TG, Narazaki G, Uosaki H, Fukushima H, Kuwahara K, Harada M, Matsuda H, Matsuoka S, Okita K, Takahashi K, Nakagawa M, Ikeda T, Sakata R, Mummery CL, Nakatsuji N, Yamanaka S, Nakao K, Yamashita JK
    Induction and enhancement of cardiac cell differentiation from mouse and human induced pluripotent stem cells with cyclosporin-A.
    PLoS One. 2011
  • Nakagawa M, Takizawa N, Narita M, Ichisaka T, Yamanaka S.
    Promotion of direct reprogramming by transformation-deficient Myc.
    Proc Natl Acad Sci U S A. 2010 Aug 10;107(32):14152-7. Epub 2010 Jul 26.
  • Nakagawa M, Yamanaka S
    Reprogramming of somatic cells to pluripotency.
    Adv Exp Med Biol. 2010;695:215-24.
  • Saunders, L.R, Sharma, A.D, Tawney, J, Nakagawa, M, Okita, K, Yamanaka, S, Willenbring, H, and Verdin, E
    miRNAs regulate SIRT1 expression during mouse embryonic stem cell differentiation and in adult mouse tissues.
    Aging (Albany NY). 2010 Jul;2(7):415-31.
  • Kazuki, Y, Hiratsuka, M, Takiguchi, M, Osaki, M, Kajitani, N, Hoshiya, H, Hiramatsu, K, Yoshino, T, Kazuki, K, Ishihara, C, Takehara, S, Higaki, K, Nakagawa, M, Takahashi, K, Yamanaka, S, and Oshimura, M
    Complete genetic correction of ips cells from Duchenne muscular dystrophy.
    Mol Ther. 2010 Feb;18(2):386-93. doi: 10.1038/mt.2009.274. Epub 2009 Dec 8.
  • Iwasaki M, Sugiyama N, Tanaka N, Ishihama Y.
    Human proteome analysis by using reversed phase monolithic silica capillary columns with enhanced sensitivity.
    J Chromatogr A. 2012 Mar 9;1228:292-7. doi: 10.1016/j.chroma.2011.10.059. Epub 2011 Oct 28. PubMed PMID: 22078304.
  • Iwasaki M, Miwa S, Ikegami T, Tomita M, Tanaka N, Ishihama Y.
    One-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale.
    Anal Chem. 2010 Apr 1;82(7):2616-20. doi: 10.1021/ac100343q. PubMed PMID: 20222674.

2009

  • Iwasaki M, Masuda T, Tomita M, Ishihama Y.
    Chemical cleavage-assisted tryptic digestion for membrane proteome analysis.
    J Proteome Res. 2009 Jun;8(6):3169-75. doi: 10.1021/pr900074n. PubMed PMID: 19348461.
  • Nagata S, Toyoda M, Yamaguchi S, Hirano K, Makino H, Nishino K, Miyagawa Y, Okita H, Kiyokawa N, Nakagawa M, Yamanaka S, Akutsu H, Umezawa A, Tada T
    Efficient reprogramming of human and mouse primary extra-embryonic cells to pluripotent stem cellsGenes Cells. 2009 Dec;14(12):1395-404. Epub 2009 Nov 13.
  • Hong H, Takahashi K, Ichisaka T, Aoi T, Kanagawa O, Nakagawa M, Okita K, Yamanaka S
    Suppression of induced pluripotent stem cell generation by the p53-p21 pathway
    Nature. 2009 Aug 27;460(7259):1132-5. Epub 2009 Aug 9.
  • Miura K, Okada Y, Aoi T, Okada A, Takahashi K, Okita K, Nakagawa M, Koyanagi M, Tanabe K, Ohnuki M, Ogawa D, Ikeda E, Okano H, Yamanaka S
    Variation in the safety of induced pluripotent stem cell lines.
    Nat Biotechnol. 2009 Aug;27(8):743-5. Epub 2009 Jul 9.
  • Niwa A, Umeda K, Chang H, Saito M, Okita K, Takahashi K, Nakagawa M, Yamanaka S, Nakahata T, Heike T
    Orderly hematopoietic development of induced pluripotent stem cells via Flk-1(+) hemoangiogenic progenitors.
    J Cell Physiol. 2009 Nov;221(2):367-77.
  • Tsubooka N, Ichisaka T, Okita K, Takahashi K, Nakagawa M, Yamanaka S
    Roles of Sall4 in the generation of pluripotent stem cells from blastocysts and fibroblasts.
    Genes Cells. 2009 Jun;14(6):683-94. Epub 2009 May 19.

2008

  • Nakagawa M, Koyanagi M, Tanabe K, Takahashi K, Ichisaka T, Aoi T, Okita K, Mochiduki Y, Takizawa N, Yamanaka S
    Generation of induced pluripotent stem cells without Myc from mouse and human fibroblasts.
    Nat Biotechnol. 2008 Jan;26(1):101-6. Epub 2007 Nov 30.
  • Okita K, Nakagawa M, Hyenjong H, Ichisaka T, Yamanaka S
    Generation of mouse induced pluripotent stem cells without viral vectors.
    Science
    . 2008 Nov 7;322(5903):949-53. Epub 2008 Oct 9.
  • Aoi T, Yae K, Nakagawa M, Ichisaka T, Okita K, Takahashi K, Chiba T, Yamanaka S
    Generation of pluripotent stem cells from adult mouse liver and stomach cells.
    Science. 2008 Aug 1;321(5889):699-702. Epub 2008 Feb 14. Erratum in: Science.2008 Aug 1;321(5889): 641.

2007

  • Takahashi K, Okita K, Nakagawa M, Yamanaka S
    Induction of pluripotent stem cells from fibroblast cultures.
    Nat Protoc. 2007;2(12):3081-9.

~2006

  • Imamura M, Miura K, Iwabuchi K, Ichisaka T, Nakagawa M, Lee J, Kanatsu-Shinohara M, Shinohara T, Yamanaka S
    Transcriptional repression and DNA hypermethylation of a small set of ES cell marker genes in male germline stem cells.
    BMC Dev Biol. 2006 Jul 21;6:34.
  • Amano H, Itakura K, Maruyama M, Ichisaka T, Nakagawa M, Yamanaka S
    Identification and targeted disruption of the mouse gene encoding ESG1 (PH34/ECAT2/DPPA5).
    BMC Dev Biol. 2006 Feb 28;6:11.
  • Takahashi K, Nakagawa M, Young SG, Yamanaka S
    Differential membrane localization of ERas and Rheb, two Ras-related proteins involved in the phosphatidylinositol 3-kinase/mTOR pathway.
    J Biol Chem. 2005 Sep 23;280(38):32768-74. Epub 2005 Jul 26.
  • Nakagawa M, Yamanaka S
    Mechanism for maintaining pluripotency in embryonic stem cells and inner cell mass
    Tanpakushitsu Kakusan Koso. 2005 May;50(6 Suppl):546-50. Review. Japanese.
  • Maruyama M, Ichisaka T, Nakagawa M, Yamanaka S
    Differential roles for Sox15 and Sox2 in transcriptional control in mouse embryonic stem cells.
    J Biol Chem. 2005 Jul 1;280(26):24371-9. Epub 2005 Apr 29.