Harukazu Suzuki

Harukazu Suzuki

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Harukazu Suzuki

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Combinatorial perturbation analysis reveals divergent regulations of mesenchymal genes during epithelial-to-mesenchymal transition.

NPJ Syst Biol Appl 2019 14;5:21. Epub 2019 Jun 14.

2Department of Biochemistry & Cellular and Molecular Biology, The University of Tennessee, Knoxville, Knoxville, TN 37996 USA.

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http://dx.doi.org/10.1038/s41540-019-0097-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6570767PMC
June 2019

Batf2 differentially regulates tissue immunopathology in Type 1 and Type 2 diseases.

Mucosal Immunol 2019 03 12;12(2):390-402. Epub 2018 Dec 12.

International Centre for Genetic Engineering and Biotechnology (ICGEB), Cape Town Component, Cape Town, 7925, South Africa.

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http://www.nature.com/articles/s41385-018-0108-2
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http://dx.doi.org/10.1038/s41385-018-0108-2DOI Listing
March 2019

Transcriptionally induced enhancers in the macrophage immune response to Mycobacterium tuberculosis infection.

BMC Genomics 2019 Jan 22;20(1):71. Epub 2019 Jan 22.

Massey University, Institute of Natural and Mathematical Sciences, Albany, Auckland, New Zealand.

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http://dx.doi.org/10.1186/s12864-019-5450-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6341744PMC
January 2019

Genome-scale regression analysis reveals a linear relationship for promoters and enhancers after combinatorial drug treatment.

Bioinformatics 2017 Dec;33(23):3696-3700

Molecular Network Control Genomics Unit, RIKEN Center for Life Science Technologies, Yokohama, Kanagawa 230-0045, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btx503DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5860321PMC
December 2017

A screening system to identify transcription factors that induce binding site-directed DNA demethylation.

Epigenetics Chromatin 2017 12 8;10(1):60. Epub 2017 Dec 8.

Division of Genomic Technologies, RIKEN Center for Life Science Technologies (CLST), RIKEN Yokohama Campus, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan.

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http://dx.doi.org/10.1186/s13072-017-0169-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5723091PMC
December 2017

Transcriptome Analysis Uncovers a Growth-Promoting Activity of Orosomucoid-1 on Hepatocytes.

EBioMedicine 2017 Oct 12;24:257-266. Epub 2017 Sep 12.

Micro-Signaling Regulation Technology Unit, RIKEN Center for Life Science Technologies, Wako, Saitama 3510198, Japan; Department of Laboratory Medicine, The Jikei University School of Medicine, Tokyo 1058461, Japan. Electronic address:

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http://dx.doi.org/10.1016/j.ebiom.2017.09.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5652006PMC
October 2017

Genome-wide profiling of transcribed enhancers during macrophage activation.

Epigenetics Chromatin 2017 10 23;10(1):50. Epub 2017 Oct 23.

Institute of Natural and Mathematical Sciences, Massey University, Albany, Auckland, 0632, New Zealand.

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http://dx.doi.org/10.1186/s13072-017-0158-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5654053PMC
October 2017

FANTOM5 CAGE profiles of human and mouse samples.

Authors:
Shuhei Noguchi Takahiro Arakawa Shiro Fukuda Masaaki Furuno Akira Hasegawa Fumi Hori Sachi Ishikawa-Kato Kaoru Kaida Ai Kaiho Mutsumi Kanamori-Katayama Tsugumi Kawashima Miki Kojima Atsutaka Kubosaki Ri-Ichiroh Manabe Mitsuyoshi Murata Sayaka Nagao-Sato Kenichi Nakazato Noriko Ninomiya Hiromi Nishiyori-Sueki Shohei Noma Eri Saijyo Akiko Saka Mizuho Sakai Christophe Simon Naoko Suzuki Michihira Tagami Shoko Watanabe Shigehiro Yoshida Peter Arner Richard A Axton Magda Babina J Kenneth Baillie Timothy C Barnett Anthony G Beckhouse Antje Blumenthal Beatrice Bodega Alessandro Bonetti James Briggs Frank Brombacher Ailsa J Carlisle Hans C Clevers Carrie A Davis Michael Detmar Taeko Dohi Albert S B Edge Matthias Edinger Anna Ehrlund Karl Ekwall Mitsuhiro Endoh Hideki Enomoto Afsaneh Eslami Michela Fagiolini Lynsey Fairbairn Mary C Farach-Carson Geoffrey J Faulkner Carmelo Ferrai Malcolm E Fisher Lesley M Forrester Rie Fujita Jun-Ichi Furusawa Teunis B Geijtenbeek Thomas Gingeras Daniel Goldowitz Sven Guhl Reto Guler Stefano Gustincich Thomas J Ha Masahide Hamaguchi Mitsuko Hara Yuki Hasegawa Meenhard Herlyn Peter Heutink Kelly J Hitchens David A Hume Tomokatsu Ikawa Yuri Ishizu Chieko Kai Hiroshi Kawamoto Yuki I Kawamura Judith S Kempfle Tony J Kenna Juha Kere Levon M Khachigian Toshio Kitamura Sarah Klein S Peter Klinken Alan J Knox Soichi Kojima Haruhiko Koseki Shigeo Koyasu Weonju Lee Andreas Lennartsson Alan Mackay-Sim Niklas Mejhert Yosuke Mizuno Hiromasa Morikawa Mitsuru Morimoto Kazuyo Moro Kelly J Morris Hozumi Motohashi Christine L Mummery Yutaka Nakachi Fumio Nakahara Toshiyuki Nakamura Yukio Nakamura Tadasuke Nozaki Soichi Ogishima Naganari Ohkura Hiroshi Ohno Mitsuhiro Ohshima Mariko Okada-Hatakeyama Yasushi Okazaki Valerio Orlando Dmitry A Ovchinnikov Robert Passier Margaret Patrikakis Ana Pombo Swati Pradhan-Bhatt Xian-Yang Qin Michael Rehli Patrizia Rizzu Sugata Roy Antti Sajantila Shimon Sakaguchi Hiroki Sato Hironori Satoh Suzana Savvi Alka Saxena Christian Schmidl Claudio Schneider Gundula G Schulze-Tanzil Anita Schwegmann Guojun Sheng Jay W Shin Daisuke Sugiyama Takaaki Sugiyama Kim M Summers Naoko Takahashi Jun Takai Hiroshi Tanaka Hideki Tatsukawa Andru Tomoiu Hiroo Toyoda Marc van de Wetering Linda M van den Berg Roberto Verardo Dipti Vijayan Christine A Wells Louise N Winteringham Ernst Wolvetang Yoko Yamaguchi Masayuki Yamamoto Chiyo Yanagi-Mizuochi Misako Yoneda Yohei Yonekura Peter G Zhang Silvia Zucchelli Imad Abugessaisa Erik Arner Jayson Harshbarger Atsushi Kondo Timo Lassmann Marina Lizio Serkan Sahin Thierry Sengstag Jessica Severin Hisashi Shimoji Masanori Suzuki Harukazu Suzuki Jun Kawai Naoto Kondo Masayoshi Itoh Carsten O Daub Takeya Kasukawa Hideya Kawaji Piero Carninci Alistair R R Forrest Yoshihide Hayashizaki

Sci Data 2017 08 29;4:170112. Epub 2017 Aug 29.

RIKEN Omics Science Center, Yokohama, Kanagawa 230-0045, Japan.

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http://dx.doi.org/10.1038/sdata.2017.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5574368PMC
August 2017

Asymmetric Regulation of Peripheral Genes by Two Transcriptional Regulatory Networks.

PLoS One 2016 2;11(8):e0160459. Epub 2016 Aug 2.

Division of Genomic Technologies, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, 230-0045, Kanagawa, Japan.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0160459PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970704PMC
July 2017

RUNX1 induces DNA replication independent active DNA demethylation at SPI1 regulatory regions.

BMC Mol Biol 2017 04 4;18(1). Epub 2017 Apr 4.

Division of Genomic Technologies, RIKEN Center for Life Science Technologies, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.

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http://dx.doi.org/10.1186/s12867-017-0087-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5381148PMC
April 2017

Erratum to: RUNX1 induces DNA replication independent active DNA demethylation at SPI1 regulatory regions.

BMC Mol Biol 2017 04 21;18(1):11. Epub 2017 Apr 21.

Division of Genomic Technologies, RIKEN Center for Life Science Technologies, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.

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http://dx.doi.org/10.1186/s12867-017-0088-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5399531PMC
April 2017

Next-generation sequencing-based small RNA profiling of cerebrospinal fluid exosomes.

Neurosci Lett 2017 01 22;636:48-57. Epub 2016 Oct 22.

Department of Neurology and Neurological Science, Graduate School of Medical and Dental Sciences, Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo, Tokyo 113-8519, Japan; Center for Brain Integration Research (CBIR), Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo, Tokyo 113-8519, Japan. Electronic address:

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http://dx.doi.org/10.1016/j.neulet.2016.10.042DOI Listing
January 2017

IL-4Rα-dependent alternative activation of macrophages is not decisive for Mycobacterium tuberculosis pathology and bacterial burden in mice.

PLoS One 2015 19;10(3):e0121070. Epub 2015 Mar 19.

International Centre for Genetic Engineering & Biotechnology (ICGEB), Cape Town component and Institute of Infectious Diseases and Molecular Medicine (IDM), Division of Immunology, University of Cape Town, Cape Town, South Africa.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0121070PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4366092PMC
February 2016

Enhanced Identification of Transcriptional Enhancers Provides Mechanistic Insights into Diseases.

Trends Genet 2016 Feb 15;32(2):76-88. Epub 2016 Jan 15.

RIKEN Preventive Medicine and Diagnosis Innovation Program, Wako, Saitama 351-0198, Japan.

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http://dx.doi.org/10.1016/j.tig.2015.11.004DOI Listing
February 2016

Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line.

Front Genet 2015 18;6:331. Epub 2015 Nov 18.

RIKEN Center for Life Science Technologies Yokohama, Japan ; Division of Genomic Technologies, RIKEN Center for Life Science Technologies Yokohama, Japan ; QEII Medical Centre and Centre for Medical Research, Harry Perkins Institute of Medical Research, The University of Western Australia Nedlands, WA, Australia.

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http://dx.doi.org/10.3389/fgene.2015.00331DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4650373PMC
December 2015

Targeting Batf2 for infectious diseases and cancer.

Oncotarget 2015 Sep;6(29):26575-82

International Centre for Genetic Engineering and Biotechnology, Cape Town Component, Cape Town, South Africa.

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http://dx.doi.org/10.18632/oncotarget.5576DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4694937PMC
September 2015

Redefining the transcriptional regulatory dynamics of classically and alternatively activated macrophages by deepCAGE transcriptomics.

Nucleic Acids Res 2015 Aug 27;43(14):6969-82. Epub 2015 Jun 27.

Division of Genomic Technologies, RIKEN Center for Life Science Technologies, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan Riken Omics Science Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan

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http://dx.doi.org/10.1093/nar/gkv646DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4538831PMC
August 2015

Batf2/Irf1 induces inflammatory responses in classically activated macrophages, lipopolysaccharides, and mycobacterial infection.

J Immunol 2015 Jun 8;194(12):6035-44. Epub 2015 May 8.

Division of Genomic Technologies, RIKEN Center for Life Science Technologies, Yokohama 230-0045, Japan; RIKEN Omics Science Center, Yokohama 230-0045, Japan;

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http://dx.doi.org/10.4049/jimmunol.1402521DOI Listing
June 2015

Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells.

Authors:
Erik Arner Carsten O Daub Kristoffer Vitting-Seerup Robin Andersson Berit Lilje Finn Drabløs Andreas Lennartsson Michelle Rönnerblad Olga Hrydziuszko Morana Vitezic Tom C Freeman Ahmad M N Alhendi Peter Arner Richard Axton J Kenneth Baillie Anthony Beckhouse Beatrice Bodega James Briggs Frank Brombacher Margaret Davis Michael Detmar Anna Ehrlund Mitsuhiro Endoh Afsaneh Eslami Michela Fagiolini Lynsey Fairbairn Geoffrey J Faulkner Carmelo Ferrai Malcolm E Fisher Lesley Forrester Daniel Goldowitz Reto Guler Thomas Ha Mitsuko Hara Meenhard Herlyn Tomokatsu Ikawa Chieko Kai Hiroshi Kawamoto Levon M Khachigian S Peter Klinken Soichi Kojima Haruhiko Koseki Sarah Klein Niklas Mejhert Ken Miyaguchi Yosuke Mizuno Mitsuru Morimoto Kelly J Morris Christine Mummery Yutaka Nakachi Soichi Ogishima Mariko Okada-Hatakeyama Yasushi Okazaki Valerio Orlando Dmitry Ovchinnikov Robert Passier Margaret Patrikakis Ana Pombo Xian-Yang Qin Sugata Roy Hiroki Sato Suzana Savvi Alka Saxena Anita Schwegmann Daisuke Sugiyama Rolf Swoboda Hiroshi Tanaka Andru Tomoiu Louise N Winteringham Ernst Wolvetang Chiyo Yanagi-Mizuochi Misako Yoneda Susan Zabierowski Peter Zhang Imad Abugessaisa Nicolas Bertin Alexander D Diehl Shiro Fukuda Masaaki Furuno Jayson Harshbarger Akira Hasegawa Fumi Hori Sachi Ishikawa-Kato Yuri Ishizu Masayoshi Itoh Tsugumi Kawashima Miki Kojima Naoto Kondo Marina Lizio Terrence F Meehan Christopher J Mungall Mitsuyoshi Murata Hiromi Nishiyori-Sueki Serkan Sahin Sayaka Nagao-Sato Jessica Severin Michiel J L de Hoon Jun Kawai Takeya Kasukawa Timo Lassmann Harukazu Suzuki Hideya Kawaji Kim M Summers Christine Wells David A Hume Alistair R R Forrest Albin Sandelin Piero Carninci Yoshihide Hayashizaki

Science 2015 Feb 12;347(6225):1010-4. Epub 2015 Feb 12.

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http://dx.doi.org/10.1126/science.1259418DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4681433PMC
February 2015

Repositioning monocyte TFRN into fibroblasts.

Methods Mol Biol 2014 ;1164:211-8

Division of Genomics Technologies, RIKEN Center for Life Science Technologies, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, 230-0045, Japan.

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http://link.springer.com/content/pdf/10.1007%2F978-1-4939-08
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http://link.springer.com/10.1007/978-1-4939-0805-9_17
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http://dx.doi.org/10.1007/978-1-4939-0805-9_17DOI Listing
January 2015

A transient disruption of fibroblastic transcriptional regulatory network facilitates trans-differentiation.

Nucleic Acids Res 2014 Aug 10;42(14):8905-13. Epub 2014 Jul 10.

RIKEN Omics Science Center, 1-7-22 Suehiro-cho, Tsurumi-Ku, Yokohama 230-0045, Japan RIKEN Center for Life Science Technologies, Division of Genomic Technologies, 1-7-22 Suehiro-cho, Tsurumi-Ku, Yokohama 230-0045, Japan

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http://dx.doi.org/10.1093/nar/gku567DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4132712PMC
August 2014

Simvastatin enhances protection against Listeria monocytogenes infection in mice by counteracting Listeria-induced phagosomal escape.

PLoS One 2013 24;8(9):e75490. Epub 2013 Sep 24.

International Centre for Genetic Engineering & Biotechnology (ICGEB), Cape Town Component and Institute of Infectious Diseases and Molecular Medicine (IIDMM), Division of Immunology, Faculty of Health Sciences, University of Cape Town, Cape Town, South Africa.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0075490PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3782446PMC
July 2014

CCL2 enhances pluripotency of human induced pluripotent stem cells by activating hypoxia related genes.

Sci Rep 2014 Jun 24;4:5228. Epub 2014 Jun 24.

1] Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho Tsurumi-ku Yokohama, Kanagawa, 230-0045 Japan [2] RIKEN Center for Life Science Technologies, Division of Genomic Technologies, 1-7-22 Suehiro-cho Tsurumi-ku Yokohama, Kanagawa, 230-0045 Japan.

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http://dx.doi.org/10.1038/srep05228DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4067614PMC
June 2014

A promoter-level mammalian expression atlas.

Authors:
Alistair R R Forrest Hideya Kawaji Michael Rehli J Kenneth Baillie Michiel J L de Hoon Vanja Haberle Timo Lassmann Ivan V Kulakovskiy Marina Lizio Masayoshi Itoh Robin Andersson Christopher J Mungall Terrence F Meehan Sebastian Schmeier Nicolas Bertin Mette Jørgensen Emmanuel Dimont Erik Arner Christian Schmidl Ulf Schaefer Yulia A Medvedeva Charles Plessy Morana Vitezic Jessica Severin Colin A Semple Yuri Ishizu Robert S Young Margherita Francescatto Intikhab Alam Davide Albanese Gabriel M Altschuler 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 Frank Brombacher A Maxwell Burroughs Andrea Califano Carlo V Cannistraci Daniel Carbajo Yun Chen Marco Chierici Yari Ciani Hans C 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 Malcolm E Fisher Martin C Frith Rie Fujita Shiro Fukuda Cesare Furlanello Masaaki Furino Jun-ichi Furusawa Teunis B Geijtenbeek Andrew P Gibson Thomas Gingeras Daniel Goldowitz Julian Gough Sven Guhl 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 M Hofmann Ilka Hoof Furni 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 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 Weonju 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 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 Shohei Noma Tadasuke Noazaki Soichi Ogishima Naganari Ohkura Hiroko Ohimiya 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 G D Prendergast Owen J L Rackham Jordan A Ramilowski Mamoon Rashid Timothy Ravasi Patrizia Rizzu Marco Roncador Sugata Roy Morten B Rye Eri Saijyo Antti Sajantila Akiko Saka Shimon Sakaguchi Mizuho Sakai Hiroki Sato Suzana Savvi Alka Saxena Claudio Schneider Erik A Schultes Gundula G Schulze-Tanzil Anita Schwegmann Thierry Sengstag Guojun Sheng Hisashi Shimoji Yishai Shimoni Jay W Shin Christophe Simon Daisuke Sugiyama Takaai Sugiyama Masanori Suzuki Naoko Suzuki Rolf K Swoboda Peter A C 't Hoen Michihira Tagami Naoko Takahashi Jun Takai Hiroshi Tanaka Hideki Tatsukawa Zuotian Tatum Mark Thompson Hiroo Toyodo Tetsuro Toyoda Elvind Valen Marc van de Wetering Linda M van den Berg Roberto Verado Dipti Vijayan Ilya E Vorontsov Wyeth W Wasserman Shoko Watanabe Christine A Wells Louise N Winteringham Ernst 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 Vladimir B Bajic Martin S Taylor Vsevolod J Makeev Albin Sandelin David A Hume Piero Carninci Yoshihide Hayashizaki

Nature 2014 Mar;507(7493):462-70

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http://dx.doi.org/10.1038/nature13182DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4529748PMC
March 2014

Identification of ZNF395 as a novel modulator of adipogenesis.

Exp Cell Res 2013 Feb 7;319(3):68-76. Epub 2012 Nov 7.

Omics Science Center (OSC), RIKEN Yokohama Institute, Tsurumi-ku, Yokohama, Kanagawa, Japan.

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http://dx.doi.org/10.1016/j.yexcr.2012.11.003DOI Listing
February 2013

CpG site-specific alteration of hydroxymethylcytosine to methylcytosine beyond DNA replication.

Biochem Biophys Res Commun 2012 Sep 17;426(1):141-7. Epub 2012 Aug 17.

RIKEN Omics Science Center, 1-7-22 Suehiro-cho, Yokohama, Kanagawa 230-0045, Japan.

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http://dx.doi.org/10.1016/j.bbrc.2012.08.053DOI Listing
September 2012

CC chemokine ligand 2 and leukemia inhibitory factor cooperatively promote pluripotency in mouse induced pluripotent cells.

Stem Cells 2011 Aug;29(8):1196-205

RIKEN Omics Science Center, RIKEN Yokohama Institute, Tsurumi-ku, Yokohama, Kanagawa, Japan.

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http://dx.doi.org/10.1002/stem.673DOI Listing
August 2011

Two-step cleavage of hairpin RNA with 5' overhangs by human DICER.

BMC Mol Biol 2011 Feb 9;12. Epub 2011 Feb 9.

RIKEN Omics Science Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.

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http://dx.doi.org/10.1186/1471-2199-12-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3048551PMC
February 2011

Reversible hydrogel formation driven by protein-peptide-specific interaction and chondrocyte entrapment.

Biomaterials 2010 Jan 17;31(1):58-66. Epub 2009 Oct 17.

CREST, Japan Science and Technology Agency, 4-1-8 Honcho, Kawaguchi, Saitama 332-0012, Japan.

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http://dx.doi.org/10.1016/j.biomaterials.2009.09.026DOI Listing
January 2010

[Mechanism of spliceosomal snRNP biogenesis and spinal muscular atrophy].

Tanpakushitsu Kakusan Koso 2010 Jan;55(1):1-10

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January 2010

Ligand-specific sequential regulation of transcription factors for differentiation of MCF-7 cells.

BMC Genomics 2009 Nov 20;10:545. Epub 2009 Nov 20.

Cellular Systems Modeling Team, Computational Systems Biology Research Group, Advanced Computational Sciences Department, RIKEN Advanced Science Institute, 1-7-22 Suehiro-cho Tsurumi-ku Yokohama, Kanagawa 230-0045, Japan.

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http://dx.doi.org/10.1186/1471-2164-10-545DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2785842PMC
November 2009

Transcriptional features of genomic regulatory blocks.

Genome Biol 2009 19;10(4):R38. Epub 2009 Apr 19.

Computational Biology Unit, Bergen Center for Computational Science, and Sars Centre for Marine Molecular Biology, University of Bergen, 5008 Bergen, Norway.

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http://dx.doi.org/10.1186/gb-2009-10-4-r38DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2688929PMC
September 2009

Genome-wide investigation of in vivo EGR-1 binding sites in monocytic differentiation.

Genome Biol 2009 19;10(4):R41. Epub 2009 Apr 19.

RIKEN Omics Science Center, RIKEN Yokohama Institute 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.

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http://dx.doi.org/10.1186/gb-2009-10-4-r41DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2688932PMC
September 2009

High-resolution analysis of aberrant regions in autosomal chromosomes in human leukemia THP-1 cell line.

BMC Res Notes 2009 Jul 27;2:153. Epub 2009 Jul 27.

Computational Systems Biology Research Group, RIKEN Advanced Science Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.

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http://link.springer.com/content/pdf/10.1186/1756-0500-2-153
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http://bmcresnotes.biomedcentral.com/articles/10.1186/1756-0
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http://dx.doi.org/10.1186/1756-0500-2-153DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2729307PMC
July 2009

Role of survival motor neuron complex components in small nuclear ribonucleoprotein assembly.

J Biol Chem 2009 May 25;284(21):14609-17. Epub 2009 Mar 25.

RIKEN Omics Sciences Center, RIKEN Yokohama Institute, Tsurumi-ku, Yokohama, Japan.

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http://dx.doi.org/10.1074/jbc.M809031200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2682908PMC
May 2009

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

Authors:
Harukazu Suzuki Alistair R R Forrest Erik van Nimwegen Carsten O Daub Piotr J Balwierz Katharine M Irvine Timo Lassmann Timothy Ravasi Yuki Hasegawa Michiel J L de Hoon Shintaro Katayama Kate Schroder Piero Carninci Yasuhiro Tomaru Mutsumi Kanamori-Katayama Atsutaka Kubosaki Altuna Akalin Yoshinari Ando Erik Arner Maki Asada Hiroshi Asahara Timothy Bailey Vladimir B Bajic Denis Bauer Anthony G Beckhouse Nicolas Bertin Johan Björkegren Frank Brombacher Erika Bulger Alistair M Chalk Joe Chiba Nicole Cloonan Adam Dawe Josee Dostie Pär G Engström Magbubah Essack Geoffrey J Faulkner J Lynn Fink David Fredman Ko Fujimori Masaaki Furuno Takashi Gojobori Julian Gough Sean M Grimmond Mika Gustafsson Megumi Hashimoto Takehiro Hashimoto Mariko Hatakeyama Susanne Heinzel Winston Hide Oliver Hofmann Michael Hörnquist Lukasz Huminiecki Kazuho Ikeo Naoko Imamoto Satoshi Inoue Yusuke Inoue Ryoko Ishihara Takao Iwayanagi Anders Jacobsen Mandeep Kaur Hideya Kawaji Markus C Kerr Ryuichiro Kimura Syuhei Kimura Yasumasa Kimura Hiroaki Kitano Hisashi Koga Toshio Kojima Shinji Kondo Takeshi Konno Anders Krogh Adele Kruger Ajit Kumar Boris Lenhard Andreas Lennartsson Morten Lindow Marina Lizio Cameron Macpherson Norihiro Maeda Christopher A Maher Monique Maqungo Jessica Mar Nicholas A Matigian Hideo Matsuda John S Mattick Stuart Meier Sei Miyamoto Etsuko Miyamoto-Sato Kazuhiko Nakabayashi Yutaka Nakachi Mika Nakano Sanne Nygaard Toshitsugu Okayama Yasushi Okazaki Haruka Okuda-Yabukami Valerio Orlando Jun Otomo Mikhail Pachkov Nikolai Petrovsky Charles Plessy John Quackenbush Aleksandar Radovanovic Michael Rehli Rintaro Saito Albin Sandelin Sebastian Schmeier Christian Schönbach Ariel S Schwartz Colin A Semple Miho Sera Jessica Severin Katsuhiko Shirahige Cas Simons George St Laurent Masanori Suzuki Takahiro Suzuki Matthew J Sweet Ryan J Taft Shizu Takeda Yoichi Takenaka Kai Tan Martin S Taylor Rohan D Teasdale Jesper Tegnér Sarah Teichmann Eivind Valen Claes Wahlestedt Kazunori Waki Andrew Waterhouse Christine A Wells Ole Winther Linda Wu Kazumi Yamaguchi Hiroshi Yanagawa Jun Yasuda Mihaela Zavolan David A Hume Takahiro Arakawa Shiro Fukuda Kengo Imamura Chikatoshi Kai Ai Kaiho Tsugumi Kawashima Chika Kawazu Yayoi Kitazume Miki Kojima Hisashi Miura Kayoko Murakami Mitsuyoshi Murata Noriko Ninomiya Hiromi Nishiyori Shohei Noma Chihiro Ogawa Takuma Sano Christophe Simon Michihira Tagami Yukari Takahashi Jun Kawai Yoshihide Hayashizaki

Nat Genet 2009 May 19;41(5):553-62. Epub 2009 Apr 19.

RIKEN Omics Science Center, RIKEN Yokohama Institute, Kanagawa, Japan.

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http://dx.doi.org/10.1038/ng.375DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6711855PMC
May 2009

Data-driven normalization strategies for high-throughput quantitative RT-PCR.

BMC Bioinformatics 2009 Apr 19;10:110. Epub 2009 Apr 19.

Department of Biostatistics, Harvard School of Public Health, 677 Huntington Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1186/1471-2105-10-110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2680405PMC
April 2009

Towards defining the nuclear proteome.

Genome Biol 2008 Jan 23;9(1):R15. Epub 2008 Jan 23.

ARC Centre of Excellence in Bioinformatics, The University of Queensland, St Lucia, Queensland, 4072, Australia.

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http://dx.doi.org/10.1186/gb-2008-9-1-r15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2395251PMC
January 2008

Gemin2 plays an important role in stabilizing the survival of motor neuron complex.

J Biol Chem 2007 Apr 16;282(15):11122-34. Epub 2007 Feb 16.

Genome Exploration Research Group, RIKEN Genomic Sciences Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.

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http://dx.doi.org/10.1074/jbc.M609297200DOI Listing
April 2007

Dynamic force spectroscopy of the specific interaction between the PDZ domain and its recognition peptides.

Langmuir 2007 Feb 2;23(5):2668-73. Epub 2007 Feb 2.

Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency, 4-1-8 Honcho, Saitama 332-0012, Japan.

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http://pubs.acs.org/doi/abs/10.1021/la0627011
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http://dx.doi.org/10.1021/la0627011DOI Listing
February 2007

Protein-protein interactions in the mammalian brain.

Authors:
Harukazu Suzuki

J Physiol 2006 Sep 13;575(Pt 2):373-7. Epub 2006 Jul 13.

Genome Exploration Research Group, RIKEN Genomic Sciences Center (GSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.

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http://dx.doi.org/10.1113/jphysiol.2006.115717DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1819454PMC
September 2006

LPS regulates proinflammatory gene expression in macrophages by altering histone deacetylase expression.

FASEB J 2006 Jul;20(9):1315-27

Cooperative Research Centre for Chronic inflammatory Diseases, Institute for Molecular Bioscience, University of Queensland, Australia.

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http://dx.doi.org/10.1096/fj.05-5360comDOI Listing
July 2006

Subcellular localization of mammalian type II membrane proteins.

Traffic 2006 May;7(5):613-25

Institute for Molecular Bioscience and ARC Centre in Bioinformatics, University of Queensland, St. Lucia, Queensland 4072, Australia.

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http://dx.doi.org/10.1111/j.1600-0854.2006.00407.xDOI Listing
May 2006

Clusters of internally primed transcripts reveal novel long noncoding RNAs.

PLoS Genet 2006 Apr 28;2(4):e37. Epub 2006 Apr 28.

Mouse Genome Informatics Consortium, The Jackson Laboratory, Bar Harbor, Maine, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.0020037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1449886PMC
April 2006

Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome.

Genome Res 2006 Jan 12;16(1):11-9. Epub 2005 Dec 12.

ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, Brisbane QLD 4072, Australia.

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http://dx.doi.org/10.1101/gr.4200206DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1356124PMC
January 2006