NISHIYAMA Tomoaki

J-GLOBAL         Last updated: Oct 1, 2018 at 18:41
 
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Name
NISHIYAMA Tomoaki
Affiliation
Kanazawa University
Section
Advanced Science Research Center, Advanced Science Research Center

Research Areas

 
 

Education

 
 
 - 
2000
Graduate School, Division of Science, The University of Tokyo
 
 
 - 
1997
Graduate School, Division of Science, The University of Tokyo
 
 
 - 
1995
The University of Tokyo
 

Published Papers

 
Paape T, Briskine RV, Halstead-Nussloch G, Lischer HEL, Shimizu-Inatsugi R, Hatakeyama M, Tanaka K, Nishiyama T, Sabirov R, Sese J, Shimizu KK
Nature communications   9(1) 3909   Sep 2018   [Refereed]
Nishiyama T, Sakayama H, de Vries J, Buschmann H, Saint-Marcoux D, Ullrich KK, Haas FB, Vanderstraeten L, Becker D, Lang D, Vosolsobě S, Rombauts S, Wilhelmsson PKI, Janitza P, Kern R, Heyl A, Rümpler F, Villalobos LIAC, Clay JM, Skokan R, Toyoda A, Suzuki Y, Kagoshima H, Schijlen E, Tajeshwar N, Catarino B, Hetherington AJ, Saltykova A, Bonnot C, Breuninger H, Symeonidi A, Radhakrishnan GV, Van Nieuwerburgh F, Deforce D, Chang C, Karol KG, Hedrich R, Ulvskov P, Glöckner G, Delwiche CF, Petrášek J, Van de Peer Y, Friml J, Beilby M, Dolan L, Kohara Y, Sugano S, Fujiyama A, Delaux PM, Quint M, Theißen G, Hagemann M, Harholt J, Dunand C, Zachgo S, Langdale J, Maumus F, Van Der Straeten D, Gould SB, Rensing SA
Cell   174(2) 448-464.e24   Jul 2018   [Refereed]
Kousho Wakae, Tomoaki Nishiyama, Satoru Kondo, Takashi Izuka, Lusheng Que, Cong Chen, Kina Kase, Kouichi Kitamura, Md Mohiuddin, Zhe Wang, Md Monjurul Ahasan, Mitsuhiro Nakamura, Hiroshi Fujiwara, Tomokazu Yoshizaki, Kazuyoshi Hosomochi, Atsushi Tajima, Tomomi Nakahara, Tohru Kiyono, Masamichi Muramatsu
Scientific Reports   8(1)    Jun 2018   [Refereed]
Yoshikatsu Sato, Nagisa Sugimoto, Tadayoshi Hirai, Akihiro Imai, Minoru Kubo, Yuji Hiwatashi, Tomoaki Nishiyama, Mitsuyasu Hasebe
Scientific Reports   7(1)    Dec 2017   [Refereed]
Naho Kanda, Machiko Ichikawa, Ayaka Ono, Atsushi Toyoda, Asao Fujiyama, Jun Abe, Yuki Tsuchikane, Tomoaki Nishiyama, Hiroyuki Sekimoto
Scientific Reports   7(1)    Dec 2017   [Refereed]
Kondo S., Wakae K., Wakisaka N., Nakanishi Y., Ishikawa K., Komori T., Moriyama-Kita M., Endo K., Murono S., Wang Z., Kitamura K., Nishiyama T., Yamaguchi K., Shigenobu S., Muramatsu M., Yoshizaki T.
ONCOGENE   36(12) 1687-1697   Mar 2017   [Refereed]
Fukushima K, Fang X, Alvarez-Ponce D, Cai H, Carretero-Paulet L, Chen C, Chang TH, Farr KM, Fujita T, Hiwatashi Y, Hoshi Y, Imai T, Kasahara M, Librado P, Mao L, Mori H, Nishiyama T, Nozawa M, Pálfalvi G, Pollard ST, Rozas J, Sánchez-Gracia A, Sankoff D, Shibata TF, Shigenobu S, Sumikawa N, Uzawa T, Xie M, Zheng C, Pollock DD, Albert VA, Li S, Hasebe M
Nature ecology & evolution   1(3) 59   Feb 2017   [Refereed]
Chen Li, Yusuke Sako, Akihiro Imai, Tomoaki Nishiyama, Kari Thompson, Minoru Kubo, Yuji Hiwatashi, Yukiko Kabeya, Dale Karlson, Shu-Hsing Wu, Masaki Ishikawa, Takashi Murata, Philip N. Benfey, Yoshikatsu Sato, Yosuke Tamada, Mitsuyasu Hasebe
Nature Communications   8 14242   Jan 2017   [Refereed]
Sato Y, Sugimoto N, Hirai T, Imai A, Kubo M, Hiwatashi Y, Nishiyama T, Hasebe M.
Scientific Reports   7(1)    2017   [Refereed]
Briskine R.V, Paape T, Shimizu-Inatsugi R, Nishiyama T, Akama S, Sese J, Shimizu K.K.
Molecular Ecology Resources      2016   [Refereed]
Izuno A, Hatakeyama M, Nishiyama T, Tamaki I, Shimizu-Inatsugi R, Sasaki R, Shimizu K.K, Isagi Y.
Journal of Plant Research   129(4) 727-736   2016   [Refereed]
Kanazawa T, Era A, Minamino N, Shikano Y, Fujimoto M, Uemura T, Nishihama R, Yamato K.T, Ishizaki K, Nishiyama T, Kohchi T, Nakano A, Ueda T.
Plant and Cell Physiology   57(2) 307-324   2016   [Refereed]
Pereman I, Mosquna A, Katz A, Wiedemann G, Lang D, Decker E.L, Tamada Y, Ishikawa T, Nishiyama T, Hasebe M, Reski R, Ohad N.
Biochimica et Biophysica Acta - Gene Regulatory Mechanisms   1859(7) 860-870   2016   [Refereed]
Breuninger H, Thamm A, Streubel S, Sakayama H, Nishiyama T, Dolan L.
Current Biology   26(12) 1622-1628   2016   [Refereed]
Delaux P.-M, Radhakrishnan G.V, Jayaraman D, Cheema J, Malbreil M, Volkening J.D, Sekimoto H, Nishiyama T, Melkonian M, Pokorny L, Rothfels C.J, Sederoff H.W, Stevenson D.W, Surek B, Zhang Y, Sussman M.R, Dunand C, Morris R.J, Roux C, Wong G.K.-S, Oldroyd G.E.D, Ane J.-M.
Proceedings of the National Academy of Sciences of the United States of America   112(43) 13390-13395   2015   [Refereed]
Wakae K, Aoyama S, Wang Z, Kitamura K, Liu G, Monjurul A.M, Koura M, Imayasu M, Sakamoto N, Nakamura M, Kyo S, Kondo S, Fujiwara H, Yoshizaki T, Kukimoto I, Yamaguchi K, Shigenobu S, Nishiyama T, Muramatsu M.
Virology   485 460-466   2015   [Refereed]
Takeshita K, Shibata T.F, Nikoh N, Nishiyama T, Hasebe M, Fukatsu T, Shigenobu S, Kikuchi Y.
Genome Announcements   2(3)    2014   [Refereed]
Gusev O, Suetsugu Y, Cornette R, Kawashima T, Logacheva M.D, Kondrashov A.S, Penin A.A, Hatanaka R, Kikuta S, Shimura S, Kanamori H, Katayose Y, Matsumoto T, Shagimardanova E, Alexeev D, Govorun V, Wisecaver J, Mikheyev A, Koyanagi R, Fujie M, Nishiyama T, Shigenobu S, Shibata T.F, Golygina V, Hasebe M, Okuda T, Satoh N, Kikawada T.
Nature Communications   5    2014   [Refereed]
Hieno A, Naznin H.A, Hyakumachi M, Sakurai T, Tokizawa M, Koyama H, Sato N, Nishiyama T, Hasebe M, Zimmer A.D, Lang D, Reski R, Rensing S.A, Obokata J, Yamamoto Y.Y.
Nucleic Acids Research   42(D1)    2014   [Refereed]
Furuta Y, Namba-Fukuyo H, Shibata T.F, Nishiyama T, Shigenobu S, Suzuki Y, Sugano S, Hasebe M, Kobayashi I.
PLoS Genetics   10(4)    2014   [Refereed]
Sakakibara K, Reisewitz P, Aoyama T, Friedrich T, Ando S, Sato Y, Tamada Y, Nishiyama T, Hiwatashi Y, Kurata T, Ishikawa M, Deguchi H, Rensing S.A, Werr W, Murata T, Hasebe M, Laux T.
Development (Cambridge)   141(8) 1660-1670   2014   [Refereed]
Shibata T.F, Maeda T, Nikoh N, Yamaguchi K, Oshima K, Hattori M, Nishiyama T, Hasebe M, Fukatsu T, Kikuchi Y, Shigenobua S.
Genome Announcements   1(4)    2013   [Refereed]
Sun J, Nishiyama T, Shimizu K, Kadota K.
BMC Bioinformatics   14(1)    2013   [Refereed]
Zimmer A.D, Lang D, Buchta K, Rombauts S, Nishiyama T, Hasebe M, Van de Peer Y, Rensing S.A, Reski R.
BMC Genomics   14(1)    2013   [Refereed]
Kubo M, Imai A, Nishiyama T, Ishikawa M, Sato Y, Kurata T, Hiwatashi Y, Reski R, Hasebe M.
PLoS ONE   8(9)    2013   [Refereed]
Hoepflinger M.C, Geretschlaeger A, Sommer A, Hoeftberger M, Nishiyama T, Sakayama H, Hammerl P, Tenhaken R, Ueda T, Foissner I.
Journal of Experimental Botany   64(18) 5553-5568   2013   [Refereed]
Koji Kadota, Tomoaki Nishiyama, Kentaro Shimizu
Algorithms for Molecular Biology   7(1) 5   2012   [Refereed]
Nishiyama T, Miyawaki K, Ohshima M, Thompson K, Nagashima A, Hasebe M, Kurata T.
PLoS ONE   7(5)    2012   [Refereed]
Banks J.A, Nishiyama T, Hasebe M, Bowman J.L, Gribskov M, DePamphilis C, Albert V.A, Aono N, Aoyama T, Ambrose B.A, Ashton N.W, Axtell M.J, Barker E, Barker M.S, Bennetzen J.L, Bonawitz N.D, Chapple C, Cheng C, Correa L.G.G, Dacre M, DeBarry J, Dreyer I, Elias M, Engstrom E.M, Estelle M, Feng L, Finet C, Floyd S.K, Frommer W.B, Fujita T, Gramzow L, Gutensohn M, Harholt J, Hattori M, Heyl A, Hirai T, Hiwatashi Y, Ishikawa M, Iwata M, Karol K.G, Koehler B, Kolukisaoglu U, Kubo M, Kurata T, Lalonde S, Li K, Li Y, Litt A, Lyons E, Manning G, Maruyama T, Michael T.P, Mikami K, Miyazaki S, Morinaga S.-I, TakashiMurata, Mueller-Roeber B, Nelson D.R, Obara M, Oguri Y, Olmstead R.G, Onodera N, Petersen B.L, Pils B, Prigge M, Rensing S.A, Ria{ñ}o-Pach{ó}n D.M, Roberts A.W, Sato Y, Scheller H.V, Schulz B, Schulz C, Shakirov E.V, Shibagaki N, Shinohara N, Shippen D.E, S?rensen I, Sotooka R, Sugimoto N, Sugita M, Sumikawa N, Tanurdzic M, Thei{ß}en G, Ulvskov P, Wakazuki S, Weng J, Willats W.W.G.T, Wipf D, Wolf P.G, Yang L, Zimmer A.D, Zhu Q, Mitros T, Hellsten U, Loqu{é} D, Otillar R, Salamov A, Schmutz J, Shapiro H, Lindquist E, Lucas S, Rokhsar D, Grigoriev I.V.
Science   332(6032) 960-963   2011   [Refereed]
Ebine K, Fujimoto M, Okatani Y, Nishiyama T, Goh T, Ito E, Dainobu T, Nishitani A, Uemura T, Sato M.H, Thordal-Christensen H, Tsutsumi N, Nakano A, Ueda T.
Nature Cell Biology   13(7) 853-859   2011   [Refereed]
Ishikawa M, Murata T, Sato Y, Nishiyama T, Hiwatashi Y, Imai A, Kimura M, Sugimoto N, Akita A, Oguri Y, Friedman W.E, Hasebe M, Kubo M.
Plant Cell   23(8) 2924-2938   2011   [Refereed]
Ohshima I, Tanikawa-Dodo Y, Saigusa T, Nishiyama T, Kitani M, Hasebe M, Mohri H.
Molecular Phylogenetics and Evolution   57(3) 1026-1036   2010   [Refereed]
OKANO Yosuke, AONO Naoki, HIWATASHI Yuji, HIWATASHI Yuji, MURATA Takashi, MURATA Takashi, NISHIYAMA Tomoaki, NISHIYAMA Tomoaki, ISHIKAWA Takaaki, KUBO Minoru, HASEBE Mitsuyasu, HASEBE Mitsuyasu, HASEBE Mitsuyasu
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AME   106(38) 16321-16326   2009
Rensing S.A, Lang D, Zimmer A.D, Terry A, Salamov A, Shapiro H, Nishiyama T, Perroud P.-F, Lindquist E.A, Kamisugi Y, Tanahashi T, Sakakibara K, Fujita T, Oishi K, Shin-I T, Kuroki Y, Toyoda A, Suzuki Y, Hashimoto S.-I, Yamaguchi K, Sugano S, Kohara Y, Fujiyama A, Anterola A, Aoki S, Ashton N, Barbazuk W.B, Barker E, Bennetzen J.L, Blankenship R, Sung H.C, Dutcher S.K, Estelle M, Fawcett J.A, Gundlach H, Hanada K, Heyl A, Hicks K.A, Hughes J, Lohr M, Mayer K, Melkozernov A, Murata T, Nelson D.R, Pils B, Prigge M, Reiss B, Renner T, Rombauts S, Rushton P.J, Sanderfoot A, Schween G, Shiu S.-H, Stueber K, Theodoulou F.L, Tu H, Van De Peer Y, Verrier P.J, Waters E, Wood A, Yang L, Cove D, Cuming A.C, Hasebe M, Lucas S, Mishler B.D, Reski R, Grigoriev I.V, Quatrano R.S, Boore J.L.
SCIENCE   319(5859) 64-69   2008   [Refereed]
SAKAKIBARA Keiko, NISHIYAMA Tomoaki, DEGUCHI Hironori, HASEBE Mitsuyasu, HASEBE Mitsuyasu, HASEBE Mitsuyasu
EVOLUTION & DEVELOPMENT   10(5) 555-566   2008
TSUJI Sumika, UEDA Kunihiko, NISHIYAMA Tomoaki, HASEBE Mitsuyasu, HASEBE Mitsuyasu, YOSHIKAWA Sumi, YOSHIKAWA Sumi, KONAGAYA Akihiko, KONAGAYA Akihiko, NISHIUCHI Takumi, YAMAGUCHI Kazuo
JOURNAL OF PLANT RESEARCH   120(2) 281-290   2007
HIRANO Ko, NAKAJIMA Masatoshi, ASANO Kenji, NISHIYAMA Tomoaki, NISHIYAMA Tomoaki, SAKAKIBARA Hitoshi, KOJIMA Mikiko, KATOH Etsuko, XIANG Hongyu, TANAHASHI Takako, TANAHASHI Takako, HASEBE Mitsuyasu, HASEBE Mitsuyasu, HASEBE Mitsuyasu, BANKS Jo Ann, ASHIKARI Motoyuki, KITANO Hidemi, UEGUCHI‐TANAKA Miyako, MATSUOKA Makoto
PLANT CELL   19(10) 3058-3079   2007
Tanabe Y, Hasebe M, Sekimoto H, Nishiyama T, Kitani M, Henschel K, M{ü}nster T, Theissen G, Nozaki H, Ito M.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AME   102(7) 2436-2441   2005   [Refereed]
Nishiyama T, Wolf P.G, Kugita M, Sinclair R.B, Sugita M, Sugiura C, Wakasugi T, Yamada K, Yoshinaga K, Yamaguchi K, Ueda K, Hasebe M.
MOLECULAR BIOLOGY AND EVOLUTION   21(10) 1813-1819   2004   [Refereed]
Nishiyama T, Fujita T, Shin-I T, Seki M, Nishide H, Uchiyama I, Kamiya A, Carninci P, Hayashizaki Y, Shinozaki K, Kohara Y, Hasebe M.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AME   100(13) 8007-8012   2003   [Refereed]
SAKAKIBARA K, NISHIYAMA T, SUMIKAWA N, KOFUJI R, MURATA T, HASEBE M
DEVELOPMENT   130(20) 4835-4846   2003
HIMI S, SANO R, NISHIYAMA T, TANAHASHI T, KATO M, UEDA K, HASEBE M
JOURNAL OF MOLECULAR EVOLUTION   53(4/5) 387-393   2001
Sakakibara K, Nishiyama T, Kato M, Hasebe M.
Molecular Biology and Evolution   18(4) 491-502   2001   [Refereed]
Nishiyama T, Hiwatashi Y, Sakakibara K, Kato M, Hasebe M.
DNA Research   7(1) 9-17   2000   [Refereed]
Murakami N, Nishiyama T, Satoh H, Suzuki T.
Plant Species Biology   12(2-3) 97-106   1997   [Refereed]

Misc

 
Journal of Integrative Plant Biology   49(8) 1154-1163   2007
INTERNATIONAL JOURNAL OF PLANT SCIENCES   168(1) 37-47   2007
Evolution of Plants: from basic concept to comparative, evolutionary genomics using model organisms
   2007

Works

 
Informatics study of reprogramming
2008
Informatics study of reprogramming
2006