Hiroaki Kitano

Hiroaki Kitano

UNVERIFIED PROFILE

Are you Hiroaki Kitano?   Register this Author

Register author
Hiroaki Kitano

Hiroaki Kitano

Publications by authors named "Hiroaki Kitano"

Are you Hiroaki Kitano?   Register this Author

97Publications

1658Reads

49Profile Views

Network-Guided Discovery of Influenza Virus Replication Host Factors.

MBio 2018 12 18;9(6). Epub 2018 Dec 18.

Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1128/mBio.02002-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6299219PMC
December 2018

Sequence homology in eukaryotes (SHOE): interactive visual tool for promoter analysis.

BMC Genomics 2018 Sep 27;19(1):715. Epub 2018 Sep 27.

Sony Computer Science Laboratories Inc., 3-14-13 Higashigotanda, Shinagawa-ku, Tokyo, 141-0022, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12864-018-5101-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6161448PMC
September 2018

Empty Niches after Extinctions Increase Population Sizes of Modern Corals.

Curr Biol 2016 12 17;26(23):3190-3194. Epub 2016 Nov 17.

Department of Biology, The Pennsylvania State University, 208 Mueller Lab, State College, PA 16802, USA; Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution, 10(th) and Constitution Avenue, NW Washington, DC 20560-0163, USA; Smithsonian Tropical Research Institute, Smithsonian Institution, 9100 Panama City PL, Washington, DC 20521, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.cub.2016.09.039DOI Listing
December 2016

A machine learning approach for the identification of key markers involved in brain development from single-cell transcriptomic data.

BMC Genomics 2016 12 22;17(Suppl 13):1025. Epub 2016 Dec 22.

Institute for Infocomm Research, A*STAR, 1 Fusionopolis Way, #21-01 Connexis (South Tower), Singapore, Singapore.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12864-016-3317-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5260093PMC
December 2016

systemsDock: a web server for network pharmacology-based prediction and analysis.

Nucleic Acids Res 2016 Jul 29;44(W1):W507-13. Epub 2016 Apr 29.

Integrated Open Systems Unit, Okinawa Institute of Science and Technology Graduate University, Onna-son, Okinawa 904-0412, Japan The Systems Biology Institute, Minato, Tokyo 108-0071, Japan Laboratory for Disease Systems Modeling, RIKEN Center for Integrative Medical Sciences, Yokohama City, Kanagawa 230-0045, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkw335DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4987901PMC
July 2016

CARFMAP: A Curated Pathway Map of Cardiac Fibroblasts.

PLoS One 2015 16;10(12):e0143274. Epub 2015 Dec 16.

Australian Regenerative Medicine Institute, Monash University, Clayton, VIC, 3800, Australia.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0143274PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4684407PMC
June 2016

Digital health revolution: perfect storm or perfect opportunity for pharmaceutical R&D?

Drug Discov Today 2016 06 25;21(6):900-11. Epub 2016 Jan 25.

The Systems Biology Institute, Tokyo 108-0071, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.drudis.2016.01.010DOI Listing
June 2016

Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data.

Nucleic Acids Res 2016 06 30;44(11):5010-21. Epub 2016 Apr 30.

Laboratory for disease systems modeling, RIKEN Center for Integrated Medical Sciences (IMS), Yokohama, Kanagawa 230-0045, Japan The Systems Biology Institute, Minato-ku, Tokyo 108-0071, Japan Sony Computer Science Laboratories, Inc, Shinagawa-ku, Tokyo 141-0022, Japan Okinawa Institute of Science and Technology, Graduate University, Onna-son, Okinawa 904-0495, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkw355DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4914117PMC
June 2016

Multilevel modeling of physiological systems on PhysioDesigner.

Nihon Yakurigaku Zasshi 2016 02;147(2):114-9

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1254/fpj.147.114DOI Listing
February 2016

Databases for multilevel biophysiology research available at Physiome.jp.

Front Physiol 2015 9;6:251. Epub 2015 Sep 9.

Integrated Open Systems Unit, Okinawa Institute of Science and Technology Graduate University Okinawa, Japan ; The Systems Biology Institute Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3389/fphys.2015.00251DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4563878PMC
October 2015

Identifying problematic drugs based on the characteristics of their targets.

Front Pharmacol 2015 1;6:186. Epub 2015 Sep 1.

Japan Science and Technology Agency ERATO Kawaoka Infection-Induced Host Responses Project Minato-ku, Japan ; The Systems Biology Institute Tokyo, Japan ; Sony Computer Science Laboratories, Inc. Tokyo, Japan ; Integrated Open Systems Unit, Okinawa Institute of Science and Technology Okinawa, Japan ; Laboratory for Disease Systems Modeling, RIKEN Center for Integrative Medical Sciences Yokohama, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3389/fphar.2015.00186DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4555035PMC
September 2015

Accelerating systems biology research and its real world deployment.

Authors:
Hiroaki Kitano

NPJ Syst Biol Appl 2015 28;1:15009. Epub 2015 Sep 28.

Editor-in-Chief, The Systems Biology Institute, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/npjsba.2015.9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5516805PMC
September 2015

An Ultrasensitive Mechanism Regulates Influenza Virus-Induced Inflammation.

PLoS Pathog 2015 Jun 5;11(6):e1004856. Epub 2015 Jun 5.

ERATO Infection-induced Host Responses Project, Japan Science and Technology Agency, Saitama, Japan; Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan; School of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America; Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.ppat.1004856DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4457877PMC
June 2015

VISIONET: intuitive visualisation of overlapping transcription factor networks, with applications in cardiogenic gene discovery.

BMC Bioinformatics 2015 May 1;16:141. Epub 2015 May 1.

Systems Biology Institute (SBI) Australia, Monash University, Clayton, VIC, 3800, Australia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12859-015-0578-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4426166PMC
May 2015

Oscillation of cAMP and Ca(2+) in cardiac myocytes: a systems biology approach.

J Physiol Sci 2015 Mar 14;65(2):195-200. Epub 2015 Jan 14.

Cardiovascular Research Institute, Yokohama City University Graduate School of Medicine, 3-9 Fukuura, Kanazawa-ku, Yokohama, 236-0004, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s12576-014-0354-3DOI Listing
March 2015

Multi-spectral fluorescent reporter influenza viruses (Color-flu) as powerful tools for in vivo studies.

Nat Commun 2015 Mar 25;6:6600. Epub 2015 Mar 25.

1] Exploratory Research for Advanced Technology Infection-Induced Host Responses Project, Japan Science and Technology Agency (JST), Kawaguchi, Saitama 332-0012, Japan [2] Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo 108-8639, Japan [3] Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin-Madison, Madison, Wisconsin 53711, USA [4] Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo 108-8639, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/ncomms7600DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4389232PMC
March 2015

Modeling and simulation using CellDesigner.

Methods Mol Biol 2014 ;1164:121-45

The Systems Biology Institute, 5-6-9 Shirokanedai, Minato-ku, Tokyo, 108-0071, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-0805-9_11DOI Listing
January 2015

Influenza virus-host interactome screen as a platform for antiviral drug development.

Cell Host Microbe 2014 Dec 20;16(6):795-805. Epub 2014 Nov 20.

ERATO Infection-Induced Host Responses Project, Japan Science and Technology Agency, Saitama 332-0012, Japan; Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan; Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin-Madison, 575 Science Drive, Madison, WI 53711, USA; Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo 108-8639, Japan. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.chom.2014.11.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4451456PMC
December 2014

Combining machine learning systems and multiple docking simulation packages to improve docking prediction reliability for network pharmacology.

PLoS One 2013 31;8(12):e83922. Epub 2013 Dec 31.

Okinawa Institute of Science and Technology Graduate University, Onna-son, Okinawa, Japan ; The Systems Biology Institute, Minato, Tokyo, Japan ; Laboratory for Disease Systems Modeling, RIKEN Center for Integrative Medical Sciences, Yokohama, Kanagawa, Japan.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0083922PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3877102PMC
September 2014

Disease severity is associated with differential gene expression at the early and late phases of infection in nonhuman primates infected with different H5N1 highly pathogenic avian influenza viruses.

J Virol 2014 Aug 4;88(16):8981-97. Epub 2014 Jun 4.

Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, The University of Tokyo, Minato-ku, Tokyo, Japan ERATO Infection-Induced Host Responses Project, Japan Science and Technology Agency, Saitama, Japan Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, The University of Tokyo, Tokyo, Japan Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin-Madison, Madison, Wisconsin, USA

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1128/JVI.00907-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4136255PMC
August 2014

Harnessing diversity towards the reconstructing of large scale gene regulatory networks.

PLoS Comput Biol 2013 21;9(11):e1003361. Epub 2013 Nov 21.

The Systems Biology Institute, Shirokanedai, Minato, Tokyo, Japan ; Laboratory of Disease Systems Modeling, Center for Integrative Medical Sciences, RIKEN, Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1003361DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3836705PMC
July 2014

Integrative knowledge management to enhance pharmaceutical R&D.

Nat Rev Drug Discov 2014 Apr;13(4):239-40

IMIM and Universitat Pompeu Fabra, Dr. Aiguader 88, 08003 Barcelona, Spain.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nrd4290DOI Listing
April 2014

Parallel real-time PCR on a chip for genetic tug-of-war (gTOW) method.

Anal Sci 2013 ;29(3):367-71

Department of Applied Chemistry, Graduate School of Engineering, Nagoya University, Nagoya, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.2116/analsci.29.367DOI Listing
September 2013

Gene regulatory network analysis supports inflammation as a key neurodegeneration process in prion disease.

BMC Syst Biol 2012 Oct 15;6:132. Epub 2012 Oct 15.

Luxembourg Center for Systems Biomedicine (LCSB), University of Luxembourg, Campus Belval, 7, avenue des Hauts fourneaux, Luxembourg L-4362, Luxembourg.

View Article

Download full-text PDF

Source
http://bmcsystbiol.biomedcentral.com/articles/10.1186/1752-0
Publisher Site
http://dx.doi.org/10.1186/1752-0509-6-132DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3607922PMC
October 2012

CTen: a web-based platform for identifying enriched cell types from heterogeneous microarray data.

BMC Genomics 2012 Sep 6;13:460. Epub 2012 Sep 6.

JST ERATO KAWAOKA Infection-induced Host Responses Project, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2164-13-460DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3473317PMC
September 2012

A framework for mapping, visualisation and automatic model creation of signal-transduction networks.

Mol Syst Biol 2012 Apr 24;8:578. Epub 2012 Apr 24.

Department of Cell and Molecular Biology, University of Gothenburg, Göteborg, Sweden.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb.2012.12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3361003PMC
April 2012

BioPAX support in CellDesigner.

Bioinformatics 2011 Dec 21;27(24):3437-8. Epub 2011 Oct 21.

Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btr586DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3232372PMC
December 2011

Software for systems biology: from tools to integrated platforms.

Nat Rev Genet 2011 Nov 3;12(12):821-32. Epub 2011 Nov 3.

The Systems Biology Institute, Minato, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://www.nature.com/articles/nrg3096
Publisher Site
http://dx.doi.org/10.1038/nrg3096DOI Listing
November 2011

Tissue-specific subnetworks and characteristics of publicly available human protein interaction databases.

Bioinformatics 2011 Sep 28;27(17):2414-21. Epub 2011 Jul 28.

JST ERATO KAWAOKA Infection-induced Host Responses Project, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btr414DOI Listing
September 2011

Social engineering for virtual 'big science' in systems biology.

Nat Chem Biol 2011 Jun;7(6):323-6

Systems Biology Institute, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nchembio.574DOI Listing
June 2011

A proof of the DBRF-MEGN method, an algorithm for deducing minimum equivalent gene networks.

Source Code Biol Med 2011 Jun 24;6(1):12. Epub 2011 Jun 24.

Laboratory for Developmental Dynamics, RIKEN Quantitative Biology Center, and Advanced Computational Sciences Department, RIKEN Advanced Science Institute, 1-7-22 Suehirocho, Tsurumi, Yokohama 230-0045, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1751-0473-6-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3152880PMC
June 2011

Grand challenges in systems physiology.

Authors:
Hiroaki Kitano

Front Physiol 2010 7;1. Epub 2010 May 7.

The Systems Biology Institute Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3389/fphys.2010.00003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3059972PMC
May 2011

Integrated quantitative analysis of the phosphoproteome and transcriptome in tamoxifen-resistant breast cancer.

J Biol Chem 2011 Jan 2;286(1):818-29. Epub 2010 Nov 2.

Medical Proteomics Laboratory, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1074/jbc.M110.156877DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013041PMC
January 2011

Connecting the dots: role of standardization and technology sharing in biological simulation.

Drug Discov Today 2010 Dec 8;15(23-24):1024-31. Epub 2010 Oct 8.

The Systems Biology Institute, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.drudis.2010.10.001DOI Listing
December 2010

A comprehensive map of the mTOR signaling network.

Mol Syst Biol 2010 Dec;6:453

Institute for Research in Immunology and Cancer, Université de Montréal, Montreal, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb.2010.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3018167PMC
December 2010

A comprehensive molecular interaction map of the budding yeast cell cycle.

Mol Syst Biol 2010 Sep;6:415

Department of Science and Technology, Keio University, Kanagawa, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb.2010.73DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2964125PMC
September 2010

Large-scale analysis of network bistability for human cancers.

PLoS Comput Biol 2010 Jul 8;6(7):e1000851. Epub 2010 Jul 8.

Sony Computer Science Laboratories, Shinagawa-ku, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1000851DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2900289PMC
July 2010

Violations of robustness trade-offs.

Authors:
Hiroaki Kitano

Mol Syst Biol 2010 Jun;6:384

The Systems Biology Institute, Minato, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb.2010.40DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2913402PMC
June 2010

Payao: a community platform for SBML pathway model curation.

Bioinformatics 2010 May 5;26(10):1381-3. Epub 2010 Apr 5.

The Systems Biology Institute, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btq143DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2865864PMC
May 2010

Fragilities caused by dosage imbalance in regulation of the budding yeast cell cycle.

PLoS Genet 2010 Apr 22;6(4):e1000919. Epub 2010 Apr 22.

Department of Science and Technology, Keio University, Yokohama-shi, Kanagawa, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1000919DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2858678PMC
April 2010

Structure of protein interaction networks and their implications on drug design.

PLoS Comput Biol 2009 Oct 30;5(10):e1000550. Epub 2009 Oct 30.

Department of Bioinformatics, Medical Research Institute, Tokyo Medical and Dental University, Bunkyo-ku, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1000550DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2760708PMC
October 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.

View Article

Download full-text PDF

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

Integration of CellDesigner and SABIO-RK.

In Silico Biol 2007 ;7(2 Suppl):S81-90

JST/ERATO-SORST Kitano Symbiotic Systems Project, Japan.

View Article

Download full-text PDF

Source
October 2007

Towards a theory of biological robustness.

Authors:
Hiroaki Kitano

Mol Syst Biol 2007 18;3:137. Epub 2007 Sep 18.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb4100179DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2013924PMC
October 2007

Deduction of intracellular sub-systems from a topological description of the network.

Mol Biosyst 2007 Aug 27;3(8):523-9. Epub 2007 Jun 27.

Automatic Control - School of Electrical Engineering, Royal Institute of Technology (KTH), Sweden.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1039/b702142aDOI Listing
August 2007

A robustness-based approach to systems-oriented drug design.

Authors:
Hiroaki Kitano

Nat Rev Drug Discov 2007 03 23;6(3):202-10. Epub 2007 Feb 23.

Sony Computer Science Laboratories Inc., 3-14-13 Higashi-Gotanda, Shinagawa, Tokyo 141-0022, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nrd2195DOI Listing
March 2007

Regulation of yeast oscillatory dynamics.

Proc Natl Acad Sci U S A 2007 Feb 6;104(7):2241-6. Epub 2007 Feb 6.

ERATO-SORST Kitano Symbiotic Systems Project, Japan Science and Technology Agency, 9S3 Shinanomachi Research Park, Keio University School of Medicine, 35 Shinanomachi, Tokyo 160-8582, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.0606677104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1794218PMC
February 2007

Biological robustness in complex host-pathogen systems.

Authors:
Hiroaki Kitano

Prog Drug Res 2007 ;64:239, 241-63

The Systems Biology Institute, Suite 6A, M31 6-31-15 Jingumae, Shibuya, Tokyo 150-0001, Japan.

View Article

Download full-text PDF

Source
January 2007

Modeling the impact of store-operated Ca2+ entry on intracellular Ca2+ oscillations.

Math Biosci 2006 Dec 19;204(2):232-49. Epub 2006 Apr 19.

Cell Physics, Royal Institute of Technology, Roslagstullsbacken 21, 106 91 Stockholm, Sweden.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.mbs.2006.03.001DOI Listing
December 2006

Genome-wide prediction of genetic interactions in a metazoan.

Bioessays 2006 Nov;28(11):1087-90

Computational and Experimental Systems Biology Group, RIKEN Genomic Sciences Center, Tsurumi, Yokohama 230-0045, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/bies.20490DOI Listing
November 2006

International alliances for quantitative modeling in systems biology.

Authors:
Hiroaki Kitano

Mol Syst Biol 2005 29;1:2005.0007. Epub 2005 Mar 29.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb4100011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1681460PMC
August 2006

A comprehensive pathway map of epidermal growth factor receptor signaling.

Mol Syst Biol 2005 25;1:2005.0010. Epub 2005 May 25.

The Systems Biology Institute, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb4100014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1681468PMC
August 2006

A comprehensive map of the toll-like receptor signaling network.

Mol Syst Biol 2006 18;2:2006.0015. Epub 2006 Apr 18.

The Systems Biology Institute, Shibuya, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb4100057DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1681489PMC
August 2006

Robustness trade-offs and host-microbial symbiosis in the immune system.

Mol Syst Biol 2006 17;2:2006.0022. Epub 2006 Jan 17.

The Systems Biology Institute, Jingumae, Shibuya, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/msb4100039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1681473PMC
August 2006

In vivo robustness analysis of cell division cycle genes in Saccharomyces cerevisiae.

PLoS Genet 2006 Jul 5;2(7):e111. Epub 2006 Jun 5.

ERATO-SORST Kitano Symbiotic Systems Project, Japan Science and Technology Agency, Shibuya-ku, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.0020111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1500812PMC
July 2006

Using process diagrams for the graphical representation of biological networks.

Nat Biotechnol 2005 Aug;23(8):961-6

The Systems Biology Institute, Suite 6A, M31 6-31-15 Jingumae, Shibuya, Tokyo, 150-0001 Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nbt1111DOI Listing
August 2005

Detection of nuclei in 4D Nomarski DIC microscope images of early Caenorhabditis elegans embryos using local image entropy and object tracking.

BMC Bioinformatics 2005 May 24;6:125. Epub 2005 May 24.

Kitano Symbiotic Systems Project, ERATO, Japan Science and Technology Corporation, M31 6A, 6-31-15 Jingumae, Shibuya, Tokyo 150-0001, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-6-125DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1175842PMC
May 2005

[Developmental systems biology].

Tanpakushitsu Kakusan Koso 2005 May;50(6 Suppl):798-803

View Article

Download full-text PDF

Source
May 2005

Metabolic syndrome and robustness tradeoffs.

Diabetes 2004 Dec;53 Suppl 3:S6-S15

Sony Computer Science Laboratories, Inc. 3-14-13, Higashi-Gotanda, Shinagawa, Tokyo 141-0022 Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.2337/diabetes.53.suppl_3.s6DOI Listing
December 2004

[Exploring the architecture of genome-wide biological network].

Authors:
Hiroaki Kitano

Tanpakushitsu Kakusan Koso 2004 Dec;49(17 Suppl):2855-63

View Article

Download full-text PDF

Source
December 2004

DBRF-MEGN method: an algorithm for deducing minimum equivalent gene networks from large-scale gene expression profiles of gene deletion mutants.

Bioinformatics 2004 Nov 27;20(16):2662-75. Epub 2004 May 27.

Kitano Symbiotic Systems Project, ERATO, Japan Science and Technology Corporation, Shibuya, Tokyo 150-0001, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/bth306DOI Listing
November 2004

Biological robustness.

Authors:
Hiroaki Kitano

Nat Rev Genet 2004 Nov;5(11):826-37

Sony Computer Science Laboratories, Inc., 3-14-13 Higashi-Gotanda, Shinagawa, Tokyo 141-0022, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nrg1471DOI Listing
November 2004

Cancer as a robust system: implications for anticancer therapy.

Authors:
Hiroaki Kitano

Nat Rev Cancer 2004 03;4(3):227-35

Sony Computer Science Laboratories, Inc., 3-14-13 Higashi-Gotanda, Shinagawa, Tokyo 141-0022, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nrc1300DOI Listing
March 2004

Cancer robustness: tumour tactics.

Authors:
Hiroaki Kitano

Nature 2003 Nov;426(6963):125

Sony Computer Science Laboratories Inc., 3-14-13 Higashi-gotanda, Shinagwa, Tokyo 141-0022.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/426125aDOI Listing
November 2003

A quantitative characterization of the yeast heterotrimeric G protein cycle.

Proc Natl Acad Sci U S A 2003 Sep 5;100(19):10764-9. Epub 2003 Sep 5.

Systems Biology Group, Exploratory Research for Advanced Technology Kitano Symbiotic Systems Project, Japan Science and Technology Corporation, Shibuya, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.1834247100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC196877PMC
September 2003

[Introductions to systems biology].

Authors:
Hiroaki Kitano

Tanpakushitsu Kakusan Koso 2003 Jun;48(7):789-93

View Article

Download full-text PDF

Source
June 2003

Computational systems biology.

Authors:
Hiroaki Kitano

Nature 2002 Nov;420(6912):206-10

Sony Computer Science Laboratories, Inc., Shinagwa, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nature01254DOI Listing
November 2002

Robustness as a measure of plausibility in models of biochemical networks.

J Theor Biol 2002 May;216(1):19-30

Systems Biology Group Tokyo & Caltech Unit, ERATO Kitano Symbiotic Systems Project, Japan Science and Technology Corporation, M-31 Suite 6A, 6-31-15, Jingumae Shibuya-ku, Tokyo 150-0001, Japan.

View Article

Download full-text PDF

Source
http://linkinghub.elsevier.com/retrieve/pii/S002251930292537
Publisher Site
http://dx.doi.org/10.1006/jtbi.2002.2537DOI Listing
May 2002

Standards for modeling.

Authors:
Hiroaki Kitano

Nat Biotechnol 2002 Apr;20(4):337

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nbt0402-337aDOI Listing
April 2002

Looking beyond the details: a rise in system-oriented approaches in genetics and molecular biology.

Authors:
Hiroaki Kitano

Curr Genet 2002 Apr 4;41(1):1-10. Epub 2002 Apr 4.

The Systems Biology Institute, Suite 6A, M31 6-31-15 Jinguu-mae, Shibuya, Tokyo 150-0001 Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s00294-002-0285-zDOI Listing
April 2002

Systems biology: a brief overview.

Authors:
Hiroaki Kitano

Science 2002 Mar;295(5560):1662-4

Sony Computer Science Laboratories, Inc., 3-14-13 Higashi-Gotanda, Shinagawa, Tokyo 141-0022, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1126/science.1069492DOI Listing
March 2002