H
Hiroki R. Ueda
Researcher at University of Tokyo
Publications - 247
Citations - 21711
Hiroki R. Ueda is an academic researcher from University of Tokyo. The author has contributed to research in topics: Circadian clock & Circadian rhythm. The author has an hindex of 59, co-authored 211 publications receiving 18300 citations. Previous affiliations of Hiroki R. Ueda include Intec, Inc. & Osaka University.
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Journal ArticleDOI
Guidelines for Genome-Scale Analysis of Biological Rhythms
Michael E. Hughes,Katherine C. Abruzzi,Ravi Allada,Ron C. Anafi,Alaaddin Bulak Arpat,Alaaddin Bulak Arpat,Gad Asher,Pierre Baldi,Charissa de Bekker,Deborah Bell-Pedersen,Justin Blau,Steve Brown,M. Fernanda Ceriani,Zheng Chen,Joanna C. Chiu,Juergen Cox,Alexander M. Crowell,Jason P. DeBruyne,Derk-Jan Dijk,Luciano DiTacchio,Francis J. Doyle,Giles E. Duffield,Jay C. Dunlap,Kristin Eckel-Mahan,Karyn A. Esser,Garret A. FitzGerald,Daniel B. Forger,Lauren J. Francey,Ying-Hui Fu,Frédéric Gachon,David Gatfield,Paul de Goede,Susan S. Golden,Carla B. Green,John Harer,Stacey L. Harmer,Jeff Haspel,Michael H. Hastings,Hanspeter Herzel,Erik D. Herzog,Christy Hoffmann,Christian I. Hong,Jacob J. Hughey,Jennifer M. Hurley,Horacio O. de la Iglesia,Carl Hirschie Johnson,Steve A. Kay,Nobuya Koike,Karl Kornacker,Achim Kramer,Katja A. Lamia,Tanya L. Leise,Scott A. Lewis,Jiajia Li,Jiajia Li,Xiaodong Li,Andrew C. Liu,Jennifer J. Loros,Tami A. Martino,Jerome S. Menet,Martha Merrow,Andrew J. Millar,Todd C. Mockler,Felix Naef,Emi Nagoshi,Michael N. Nitabach,María Teresa Camacho Olmedo,Dmitri A. Nusinow,Louis J. Ptáček,David A. Rand,Akhilesh B. Reddy,Akhilesh B. Reddy,Maria S. Robles,Till Roenneberg,Michael Rosbash,Marc D. Ruben,Samuel S. C. Rund,Aziz Sancar,Paolo Sassone-Corsi,Amita Sehgal,Scott Sherrill-Mix,Debra J. Skene,Kai-Florian Storch,Joseph S. Takahashi,Hiroki R. Ueda,Han Wang,Charles J. Weitz,Pål O. Westermark,Herman Wijnen,Ying Xu,Gang Wu,Seung Hee Yoo,Michael W. Young,Eric E. Zhang,Tomasz Zielinski,John B. Hogenesch +95 more
TL;DR: CircaInSilico is introduced, a web-based application for generating synthetic genome biology data to benchmark statistical methods for studying biological rhythms, and several unmet analytical needs, including applications to clinical medicine, are discussed and productive avenues to address them are suggested.
Journal ArticleDOI
Versatile whole-organ/body staining and imaging based on electrolyte-gel properties of biological tissues
Etsuo A. Susaki,Chika Shimizu,Akihiro Kuno,Akihiro Kuno,Kazuki Tainaka,Xiang Li,Kengo Nishi,Ken Morishima,Hiroaki Ono,Koji L. Ode,Yuki Saeki,Kazunari Miyamichi,Kaoru Isa,Chihiro Yokoyama,Hiroki Kitaura,Masako Ikemura,Tetsuo Ushiku,Yoshihiro Shimizu,Takashi Saito,Takaomi C. Saido,Masashi Fukayama,Hirotaka Onoe,Kazushige Touhara,Tadashi Isa,Akiyoshi Kakita,Mitsuhiro Shibayama,Hiroki R. Ueda +26 more
TL;DR: The authors characterise optically cleared tissue as an electrolyte gel and apply this knowledge to stain the entirety of thick tissue samples, offering advanced opportunities for organ- and organism-scale histological analysis of multicellular systems.
Journal ArticleDOI
Single-cell gene profiling defines differential progenitor subclasses in mammalian neurogenesis.
Ayano Kawaguchi,Tomoko Ikawa,Takeya Kasukawa,Hiroki R. Ueda,Kazuki Kurimoto,Mitinori Saitou,Fumio Matsuzaki +6 more
TL;DR: This work systematically analyzed the cDNA profiles of a large number of single progenitor cells at the mid-embryonic stage in mouse and identified a set of genes that distinguishes between the apical and basal progenitors.
Journal ArticleDOI
Robust oscillations within the interlocked feedback model of Drosophila circadian rhythm.
TL;DR: In order to examine whether interlocked feedback loops can be a basic mechanism for circadian rhythms, a mathematical model was created and examined and it was revealed that the interlocked Feedback Model has robust properties in oscillations.
Journal ArticleDOI
Inosine cyanoethylation identifies A-to-I RNA editing sites in the human transcriptome
TL;DR: A chemical method to identify inosines, called inosine chemical erasing (ICE), that is based on cyanoethylation combined with reverse transcription is described and a large-scale verification of the ICE method was carried out focusing on 642 regions in human cDNA and identified 5,072 editing sites, including 4,395 new sites.