T
Takahiro Arakawa
Researcher at Tokyo Medical and Dental University
Publications - 238
Citations - 11737
Takahiro Arakawa is an academic researcher from Tokyo Medical and Dental University. The author has contributed to research in topics: Biosensor & Glucose oxidase. The author has an hindex of 35, co-authored 218 publications receiving 10578 citations. Previous affiliations of Takahiro Arakawa include Waseda University & University of Tokyo.
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Journal ArticleDOI
A promoter-level mammalian expression atlas
Alistair R. R. Forrest,Hideya Kawaji,Michael Rehli,J Kenneth Baillie,Michiel J. L. de Hoon,Vanja Haberle,Vanja Haberle,Timo Lassmann,Ivan V. Kulakovskiy,Ivan V. Kulakovskiy,Marina Lizio,Masayoshi Itoh,Robin Andersson,Christopher J. Mungall,Terrence F. Meehan,Sebastian Schmeier,Sebastian Schmeier,Nicolas Bertin,Mette C. Jørgensen,Emmanuel Dimont,Erik Arner,Christian Schmidl,Christian Schmidl,Ulf Schaefer,Yulia A. Medvedeva,Yulia A. Medvedeva,Charles Plessy,Morana Vitezic,Jessica Severin,Colin A. Semple,Yuri Ishizu,Robert Young,Margherita Francescatto,Margherita Francescatto,Intikhab Alam Altschuler,Davide Albanese,Gabriel M. Altschule,Takahiro Arakawa,John A.C. Archer,Peter Arner,Magda Babina,Sarah Rennie,Piotr J. Balwierz,Anthony G Beckhouse,Swati Pradhan-Bhatt,Judith A. Blake,Antje Blumenthal,Beatrice Bodega,Alessandro Bonetti,James Briggs,James Briggs,Frank Brombacher,Frank Brombacher,A. Maxwell Burroughs,Andrea Califano,Carlo Vittorio Cannistraci,Carlo Vittorio Cannistraci,Daniel Carbajo,Yun Chen,Marco Chierici,Yari Ciani,Hans Clevers,Hans Clevers,Emiliano Dalla,Carrie A. Davis,Michael Detmar,Alexander D. Diehl,Taeko Dohi,Finn Drabløs,Albert S.B. Edge,Matthias Edinger,Karl Ekwall,Mitsuhiro Endoh,Hideki Enomoto,Michela Fagiolini,Lynsey Fairbairn,Hai Fang,Mary C. Farach-Carson,Geoffrey J. Faulkner,Alexander V. Favorov,Alexander V. Favorov,Alexander V. Favorov,Malcolm E. Fisher,Martin C. Frith,Rie Fujita,Shiro Fukuda,Cesare Furlanello,Masaaki Furuno,Jun Ichi Furusawa,Teunis B. H. Geijtenbeek,Andrew P. Gibson,Thomas R. Gingeras,Dan Goldowitz,Julian Gough,Sven Guhl,Reto Guler,Reto Guler,Stefano Gustincich,Thomas J. Ha,Masahide Hamaguchi,Mitsuko Hara,Matthias Harbers,Jayson Harshbarger,Akira Hasegawa,Yuki Hasegawa,Takehiro Hashimoto,Meenhard Herlyn,Kelly J Hitchens,Shannan J. Ho Sui,Oliver Hofmann,Ilka Hoof,Fumi Hori,Lukasz Huminiecki,Kei Iida,Tomokatsu Ikawa,Boris R. Jankovic,Hui Jia,Anagha Joshi,Giuseppe Jurman,Bogumil Kaczkowski,Chieko Kai,Kaoru Kaida,Ai Kaiho,Kazuhiro Kajiyama,Mutsumi Kanamori-Katayama,Artem S. Kasianov,Takeya Kasukawa,Shintaro Katayama,Sachi Kato,Shuji Kawaguchi,Hiroshi Kawamoto,Yuki I. Kawamura,Tsugumi Kawashima,Judith S. Kempfle,Tony J. Kenna,Juha Kere,Juha Kere,Levon M. Khachigian,Toshio Kitamura,S. Peter Klinken,Alan J. Knox,Miki Kojima,Soichi Kojima,Naoto Kondo,Haruhiko Koseki,Shigeo Koyasu,Sarah Krampitz,Atsutaka Kubosaki,Andrew T. Kwon,Jeroen F. J. Laros,Weon Ju Lee,Andreas Lennartsson,Kang Li,Berit Lilje,Leonard Lipovich,Alan Mackay-Sim,Ri Ichiroh Manabe,Jessica C. Mar,Benoit Marchand,Anthony Mathelier,Niklas Mejhert,Alison M. Meynert,Yosuke Mizuno,David A. de Lima Morais,Hiromasa Morikawa,Mitsuru Morimoto,Kazuyo Moro,Efthymios Motakis,Hozumi Motohashi,Christine L. Mummery,Mitsuyoshi Murata,Sayaka Nagao-Sato,Yutaka Nakachi,Fumio Nakahara,Toshiyuki Nakamura,Yukio Nakamura,Kenichi Nakazato,Erik van Nimwegen,Noriko Ninomiya,Hiromi Nishiyori,Shohei Noma,Tadasuke Nozaki,Soichi Ogishima,Soichi Ogishima,Naganari Ohkura,Hiroko Ohmiya,Hiroshi Ohno,Mitsuhiro Ohshima,Mariko Okada-Hatakeyama,Yasushi Okazaki,Valerio Orlando,Dmitry A. Ovchinnikov,Arnab Pain,Robert Passier,Margaret Patrikakis,Helena Persson,Silvano Piazza,James Prendergast,Owen J. L. Rackham,Jordan A. Ramilowski,Mamoon Rashid,Timothy Ravasi,Patrizia Rizzu,Marco Roncador,Sugata Roy,Morten Beck Rye,Eri Saijyo,Antti Sajantila,Akiko Saka,Shimon Sakaguchi,Mizuho Sakai,Hiroki Sato,Hironori Satoh,Suzana Savvi,Suzana Savvi,Alka Saxena,Claudio Schneider,Erik Anthony Schultes,Gundula G. Schulze-Tanzil,Anita Schwegmann,Anita Schwegmann,Thierry Sengstag,Guojun Sheng,Hisashi Shimoji,Yishai Shimoni,Jay W. Shin,Christophe Simon,Daisuke Sugiyama,Takaaki Sugiyama,Masanori Suzuki,Naoko Suzuki,Rolf Swoboda,Peter A C 't Hoen,Michihira Tagami,Naoko Takahashi Tagami,Jun Takai,Hiroshi Tanaka,Hideki Tatsukawa,Zuotian Tatum,Mark Thompson,Hiroo Toyoda,Tetsuro Toyoda,Eivind Valen,Marc van de Wetering,Linda M. van den Berg,Roberto Verardo,Dipti Vijayan,Ilya E. Vorontsov,Wyeth W. Wasserman,Shoko Watanabe,Christine A. Wells,Louise N. Winteringham,Ernst J. Wolvetang,Emily J. Wood,Yoko Yamaguchi,Masayuki Yamamoto,Misako Yoneda,Yohei Yonekura,Shigehiro Yoshida,Susan E. Zabierowski,Peter G. Zhang,Xiaobei Zhao,Silvia Zucchelli,Kim M. Summers,Harukazu Suzuki,Carsten O. Daub,Jun Kawai,Peter Heutink,Winston Hide,Tom C. Freeman,Boris Lenhard,Boris Lenhard,Lenhard Vladimir B. Bajic,Martin S. Taylor,Vsevolod J. Makeev,Vsevolod J. Makeev,Vsevolod J. Makeev,Albin Sandelin,David A. Hume,Piero Carninci,Yoshihide Hayashizaki +280 more
TL;DR: For example, the authors mapped transcription start sites (TSSs) and their usage in human and mouse primary cells, cell lines and tissues to produce a comprehensive overview of mammalian gene expression across the human body.
Journal ArticleDOI
Empirical analysis of transcriptional activity in the Arabidopsis genome.
Kayoko Yamada,Jun Lim,Joseph M. Dale,Huaming Chen,Huaming Chen,Paul Shinn,Paul Shinn,Curtis J. Palm,Audrey Southwick,Hank C. Wu,Christopher Kim,Christopher Kim,Michelle Nguyen,Paul K. Pham,Rosa Cheuk,Rosa Cheuk,George Karlin-Newmann,Shirley X. Liu,Bao Lam,Hitomi Sakano,Troy Wu,Guixia Yu,Molly Miranda,Hong L. Quach,Matthew Tripp,Charlie H. Chang,Jeong M. Lee,Mitsue J. Toriumi,Marie M. H. Chan,Carolyn C. Tang,Courtney Onodera,Justine M. Deng,Kenji Akiyama,Yasser Ansari,Takahiro Arakawa,Jenny Banh,Fumika Banno,Leah Bowser,Shelise Brooks,Piero Carninci,Qimin Chao,Nathan Choy,Akiko Enju,Andrew D. Goldsmith,Mani Gurjal,Nancy F. Hansen,Yoshihide Hayashizaki,Chanda Johnson-Hopson,Vickie Hsuan,Kei Iida,Meagan Karnes,Shehnaz Khan,Eric Koesema,Junko Ishida,Paul X. Jiang,Ted Jones,Jun Kawai,Asako Kamiya,Cristina C. Meyers,Maiko Nakajima,Mari Narusaka,Motoaki Seki,Tetsuya Sakurai,Masakazu Satou,Racquel Tamse,Maria Vaysberg,Erika Wallender,Cecilia Wong,Yuki Yamamura,Shiaulou Yuan,Kazuo Shinozaki,Ronald W. Davis,Athanasios Theologis,Joseph R. Ecker,Joseph R. Ecker +74 more
TL;DR: In this paper, a dual experimental strategy was used to verify and correct the initial genome sequence annotation of the reference plant Arabidopsis and identified 5817 novel transcription units including a substantial amount of antisense gene transcription, and 40 genes within the genetically defined centromeres.
Journal ArticleDOI
Collection, Mapping, and Annotation of Over 28,000 cDNA Clones from japonica Rice
Shoshi Kikuchi,Kouji Satoh,Toshifumi Nagata,Nobuyuki Kawagashira,Koji Doi,Naoki Kishimoto,Junshi Yazaki,Masahiro Ishikawa,Hitomi Yamada,Hisako Ooka,Isamu Hotta,Keiichi Kojima,Takahiro Namiki,Eisuke Ohneda,Wataru Yahagi,Kohji Suzuki,Chao Jie Li,Kenji Ohtsuki,Toru Shishiki,Yasuhiro Otomo,Kazuo Murakami,Yoshiharu Iida,Sumio Sugano,Tatsuto Fujimura,Yutaka Suzuki,Yuki Tsunoda,Takashi Kurosaki,Takeko Kodama,Hiromi Masuda,Michie Kobayashi,Quihong Xie,Min Lu,Ryuya Narikawa,Akio Sugiyama,Kouichi Mizuno,Satoko Yokomizo,Junko Niikura,Rieko Ikeda,Junya Ishibiki,Midori Kawamata,Akemi Yoshimura,Junichirou Miura,Takahiro Kusumegi,Mitsuru Oka,Risa Ryu,Mariko Ueda,Kenichi Matsubara,Jun Kawai,Piero Carninci,Jun Adachi,Katsunori Aizawa,Takahiro Arakawa,Shiro Fukuda,Ayako Hara,Wataru Hashidume,Norihito Hayatsu,Koichi Imotani,Yoshiki Ishii,Masayoshi Itoh,Ikuko Kagawa,Shinji Kondo,Hedeaki Konno,Ai Miyazaki,Naoki Osato,Yoshimi Ota,Rintaro Saito,Daisuke Sasaki,Kenjiro Sato,Kazuhiro Shibata,Akira Shinagawa,Toshiyuki Shiraki,Masayasu Yoshino,Yoshihide Hayashizaki +72 more
TL;DR: Mapping of the cDNA clones to genomic DNA revealed that there are 19,000 to 20,500 transcription units in the rice genome, and protein informatics analysis against the InterPro database revealed the existence of proteins presented in rice but not in Arabidopsis.
Journal ArticleDOI
Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage.
Toshiyuki Shiraki,Shinji Kondo,Shintaro Katayama,Kazunori Waki,Takeya Kasukawa,Hideya Kawaji,Rimantas Kodzius,Akira Watahiki,Mari M. Nakamura,Takahiro Arakawa,Shiro Fukuda,Daisuke Sasaki,Anna J. Podhajska,Matthias Harbers,Jun Kawai,Piero Carninci,Yoshihide Hayashizaki +16 more
TL;DR: By analyzing four libraries (brain, cortex, hippocampus, and cerebellum), this work redefined more accurately the TSPs of 11-27% of the analyzed transcriptional units that were hit.
Journal ArticleDOI
The regulated retrotransposon transcriptome of mammalian cells.
Geoffrey J. Faulkner,Yasumasa Kimura,Carsten O. Daub,Shivangi Wani,Charles Plessy,Katharine M. Irvine,Kate Schroder,Nicole Cloonan,Anita L Steptoe,Timo Lassmann,Kazunori Waki,Nadine Hornig,Takahiro Arakawa,Hazuki Takahashi,Jun Kawai,Alistair R. R. Forrest,Harukazu Suzuki,Yoshihide Hayashizaki,David A. Hume,Valerio Orlando,Sean M. Grimmond,Piero Carninci +21 more
TL;DR: It is reported that 6–30% of cap-selected mouse and human RNA transcripts initiate within repetitive elements, and it is concluded that retrotransposon transcription has a key influence upon the transcriptional output of the mammalian genome.