Hideaki Sugawara

Hideaki Sugawara

UNVERIFIED PROFILE

Are you Hideaki Sugawara?   Register this Author

Register author
Hideaki Sugawara

Hideaki Sugawara

Publications by authors named "Hideaki Sugawara"

Are you Hideaki Sugawara?   Register this Author

43Publications

1114Reads

10Profile Views

TP Atlas: integration and dissemination of advances in Targeted Proteins Research Program (TPRP)-structural biology project phase II in Japan.

J Struct Funct Genomics 2012 Sep 29;13(3):145-54. Epub 2012 May 29.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s10969-012-9139-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3414706PMC
September 2012

Intrinsically disordered regions have specific functions in mitochondrial and nuclear proteins.

Mol Biosyst 2012 Jan 24;8(1):247-55. Epub 2011 Aug 24.

Center for Information Biology-DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1039/c1mb05208jDOI Listing
January 2012

Biological databases at DNA Data Bank of Japan in the era of next-generation sequencing technologies.

Adv Exp Med Biol 2010 ;680:125-35

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4419-5913-3_15DOI Listing
February 2011

The Autophagy Database: an all-inclusive information resource on autophagy that provides nourishment for research.

Nucleic Acids Res 2011 Jan 23;39(Database issue):D986-90. Epub 2010 Oct 23.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata 1111, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkq995DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013813PMC
January 2011

DDBJ progress report.

Nucleic Acids Res 2011 Jan 9;39(Database issue):D22-7. Epub 2010 Nov 9.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems, Yata, Mishima 411-8510, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkq1041DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013661PMC
January 2011

The sequence read archive.

Nucleic Acids Res 2011 Jan 9;39(Database issue):D19-21. Epub 2010 Nov 9.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkq1019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013647PMC
January 2011

Archiving next generation sequencing data.

Nucleic Acids Res 2010 Jan 3;38(Database issue):D870-1. Epub 2009 Dec 3.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkp1078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808927PMC
January 2010

[Information platform of targeted proteins research program].

Tanpakushitsu Kakusan Koso 2009 Sep;54(12 Suppl):1530-4

View Article

Download full-text PDF

Source
September 2009

Web API for biology with a workflow navigation system.

Nucleic Acids Res 2009 Jul 5;37(Web Server issue):W11-6. Epub 2009 May 5.

Laboratory for Research and Development of Biological Databases, Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata 1111, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkp300DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2703950PMC
July 2009

National BioResource Project Information Center.

Exp Anim 2009 Apr;58(2):75-84

National Institute of Genetics, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1538/expanim.58.75DOI Listing
April 2009

DDBJ dealing with mass data produced by the second generation sequencer.

Nucleic Acids Res 2009 Jan 16;37(Database issue):D16-8. Epub 2008 Oct 16.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, Yata, Mishima 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkn724DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686496PMC
January 2009

The GTOP database in 2009: updated content and novel features to expand and deepen insights into protein structures and functions.

Nucleic Acids Res 2009 Jan 4;37(Database issue):D333-7. Epub 2008 Nov 4.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata 1111, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkn855DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686575PMC
January 2009

The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts.

Authors:
Chisato Yamasaki Katsuhiko Murakami Yasuyuki Fujii Yoshiharu Sato Erimi Harada Jun-ichi Takeda Takayuki Taniya Ryuichi Sakate Shingo Kikugawa Makoto Shimada Motohiko Tanino Kanako O Koyanagi Roberto A Barrero Craig Gough Hong-Woo Chun Takuya Habara Hideki Hanaoka Yosuke Hayakawa Phillip B Hilton Yayoi Kaneko Masako Kanno Yoshihiro Kawahara Toshiyuki Kawamura Akihiro Matsuya Naoki Nagata Kensaku Nishikata Akiko Ogura Noda Shin Nurimoto Naomi Saichi Hiroaki Sakai Ryoko Sanbonmatsu Rie Shiba Mami Suzuki Kazuhiko Takabayashi Aiko Takahashi Takuro Tamura Masayuki Tanaka Susumu Tanaka Fusano Todokoro Kaori Yamaguchi Naoyuki Yamamoto Toshihisa Okido Jun Mashima Aki Hashizume Lihua Jin Kyung-Bum Lee Yi-Chueh Lin Asami Nozaki Katsunaga Sakai Masahito Tada Satoru Miyazaki Takashi Makino Hajime Ohyanagi Naoki Osato Nobuhiko Tanaka Yoshiyuki Suzuki Kazuho Ikeo Naruya Saitou Hideaki Sugawara Claire O'Donovan Tamara Kulikova Eleanor Whitfield Brian Halligan Mary Shimoyama Simon Twigger Kei Yura Kouichi Kimura Tomohiro Yasuda Tetsuo Nishikawa Yutaka Akiyama Chie Motono Yuri Mukai Hideki Nagasaki Makiko Suwa Paul Horton Reiko Kikuno Osamu Ohara Doron Lancet Eric Eveno Esther Graudens Sandrine Imbeaud Marie Anne Debily Yoshihide Hayashizaki Clara Amid Michael Han Andreas Osanger Toshinori Endo Michael A Thomas Mika Hirakawa Wojciech Makalowski Mitsuteru Nakao Nam-Soon Kim Hyang-Sook Yoo Sandro J De Souza Maria de Fatima Bonaldo Yoshihito Niimura Vladimir Kuryshev Ingo Schupp Stefan Wiemann Matthew Bellgard Masafumi Shionyu Libin Jia Danielle Thierry-Mieg Jean Thierry-Mieg Lukas Wagner Qinghua Zhang Mitiko Go Shinsei Minoshima Masafumi Ohtsubo Kousuke Hanada Peter Tonellato Takao Isogai Ji Zhang Boris Lenhard Sangsoo Kim Zhu Chen Ursula Hinz Anne Estreicher Kenta Nakai Izabela Makalowska Winston Hide Nicola Tiffin Laurens Wilming Ranajit Chakraborty Marcelo Bento Soares Maria Luisa Chiusano Yutaka Suzuki Charles Auffray Yumi Yamaguchi-Kabata Takeshi Itoh Teruyoshi Hishiki Satoshi Fukuchi Ken Nishikawa Sumio Sugano Nobuo Nomura Yoshio Tateno Tadashi Imanishi Takashi Gojobori

Nucleic Acids Res 2008 Jan 18;36(Database issue):D793-9. Epub 2007 Dec 18.

Japan Biological Information Research Center, Japan Biological Informatics Consortium, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkm999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238988PMC
January 2008

Novel phylogenetic studies of genomic sequence fragments derived from uncultured microbe mixtures in environmental and clinical samples.

DNA Res 2005 10;12(5):281-90. Epub 2006 Jan 10.

Center for Information Biology, National Institute of Genetics, The Graduate University for Advanced Studies (Sokendai) Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/dnares/dsi015DOI Listing
October 2007

Identification of discriminative characteristics for clusters from biologic data with InforBIO software.

BMC Bioinformatics 2007 Aug 2;8:281. Epub 2007 Aug 2.

Center for Information Biology and DDBJ, National Institute of Genetics, Yata, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-8-281DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1973088PMC
August 2007

DDBJ working on evaluation and classification of bacterial genes in INSDC.

Nucleic Acids Res 2007 Jan 15;35(Database issue):D13-5. Epub 2006 Nov 15.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems Yata, Mishima 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkl908DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1669713PMC
January 2007

Genome Information Broker for Viruses (GIB-V): database for comparative analysis of virus genomes.

Nucleic Acids Res 2007 Jan 7;35(Database issue):D339-42. Epub 2006 Dec 7.

Center for Information Biology and DNA Data Bank of Japan National Institute of Genetics and Sokendai, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkl1004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1781101PMC
January 2007

Exploration and grading of possible genes from 183 bacterial strains by a common protocol to identification of new genes: Gene Trek in Prokaryote Space (GTPS).

DNA Res 2006 Dec 13;13(6):245-54. Epub 2006 Dec 13.

Center for Information Biology, DNA Data Bank of Japan, National Institute of Genetics, The Graduate University for Advanced Studies (SOKENDAI) Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/dnares/dsl014DOI Listing
December 2006

G-InforBIO: integrated system for microbial genomics.

BMC Bioinformatics 2006 Aug 4;7:368. Epub 2006 Aug 4.

Center for Information Biology and DDBJ, National Institute of Genetics 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-7-368DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1552091PMC
August 2006

Splicing profile based protein categorization between human and mouse genomes by use of the DDBJ Web services.

Genome Inform 2004 ;15(2):13-20

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics and the Graduate University for Advanced Studies, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
January 2006

Self-Organizing Map (SOM) unveils and visualizes hidden sequence characteristics of a wide range of eukaryote genomes.

Gene 2006 Jan 20;365:27-34. Epub 2005 Dec 20.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, and The Graduate University for Advanced Studies (Sokendai), Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2005.09.040DOI Listing
January 2006

DDBJ in preparation for overview of research activities behind data submissions.

Nucleic Acids Res 2006 Jan;34(Database issue):D6-9

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics Research Organization of Information and Systems, Yata, Mishima, 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkj111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347473PMC
January 2006

Integrative annotation of 21,037 human genes validated by full-length cDNA clones.

Authors:
Tadashi Imanishi Takeshi Itoh Yutaka Suzuki Claire O'Donovan Satoshi Fukuchi Kanako O Koyanagi Roberto A Barrero Takuro Tamura Yumi Yamaguchi-Kabata Motohiko Tanino Kei Yura Satoru Miyazaki Kazuho Ikeo Keiichi Homma Arek Kasprzyk Tetsuo Nishikawa Mika Hirakawa Jean Thierry-Mieg Danielle Thierry-Mieg Jennifer Ashurst Libin Jia Mitsuteru Nakao Michael A Thomas Nicola Mulder Youla Karavidopoulou Lihua Jin Sangsoo Kim Tomohiro Yasuda Boris Lenhard Eric Eveno Yoshiyuki Suzuki Chisato Yamasaki Jun-ichi Takeda Craig Gough Phillip Hilton Yasuyuki Fujii Hiroaki Sakai Susumu Tanaka Clara Amid Matthew Bellgard Maria de Fatima Bonaldo Hidemasa Bono Susan K Bromberg Anthony J Brookes Elspeth Bruford Piero Carninci Claude Chelala Christine Couillault Sandro J de Souza Marie-Anne Debily Marie-Dominique Devignes Inna Dubchak Toshinori Endo Anne Estreicher Eduardo Eyras Kaoru Fukami-Kobayashi Gopal R Gopinath Esther Graudens Yoonsoo Hahn Michael Han Ze-Guang Han Kousuke Hanada Hideki Hanaoka Erimi Harada Katsuyuki Hashimoto Ursula Hinz Momoki Hirai Teruyoshi Hishiki Ian Hopkinson Sandrine Imbeaud Hidetoshi Inoko Alexander Kanapin Yayoi Kaneko Takeya Kasukawa Janet Kelso Paul Kersey Reiko Kikuno Kouichi Kimura Bernhard Korn Vladimir Kuryshev Izabela Makalowska Takashi Makino Shuhei Mano Regine Mariage-Samson Jun Mashima Hideo Matsuda Hans-Werner Mewes Shinsei Minoshima Keiichi Nagai Hideki Nagasaki Naoki Nagata Rajni Nigam Osamu Ogasawara Osamu Ohara Masafumi Ohtsubo Norihiro Okada Toshihisa Okido Satoshi Oota Motonori Ota Toshio Ota Tetsuji Otsuki Dominique Piatier-Tonneau Annemarie Poustka Shuang-Xi Ren Naruya Saitou Katsunaga Sakai Shigetaka Sakamoto Ryuichi Sakate Ingo Schupp Florence Servant Stephen Sherry Rie Shiba Nobuyoshi Shimizu Mary Shimoyama Andrew J Simpson Bento Soares Charles Steward Makiko Suwa Mami Suzuki Aiko Takahashi Gen Tamiya Hiroshi Tanaka Todd Taylor Joseph D Terwilliger Per Unneberg Vamsi Veeramachaneni Shinya Watanabe Laurens Wilming Norikazu Yasuda Hyang-Sook Yoo Marvin Stodolsky Wojciech Makalowski Mitiko Go Kenta Nakai Toshihisa Takagi Minoru Kanehisa Yoshiyuki Sakaki John Quackenbush Yasushi Okazaki Yoshihide Hayashizaki Winston Hide Ranajit Chakraborty Ken Nishikawa Hideaki Sugawara Yoshio Tateno Zhu Chen Michio Oishi Peter Tonellato Rolf Apweiler Kousaku Okubo Lukas Wagner Stefan Wiemann Robert L Strausberg Takao Isogai Charles Auffray Nobuo Nomura Takashi Gojobori Sumio Sugano

PLoS Biol 2004 Jun 20;2(6):e162. Epub 2004 Apr 20.

Integrated Database Group, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pbio.0020162DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC393292PMC
June 2004

[Trends in bioinformatics].

Authors:
Hideaki Sugawara

Tanpakushitsu Kakusan Koso 2004 Jan;49(1):72-3

View Article

Download full-text PDF

Source
January 2004

[Data release in Human Genome Sequencing Projects].

Authors:
Hideaki Sugawara

Tanpakushitsu Kakusan Koso 2003 Oct;48(13):1857-62

View Article

Download full-text PDF

Source
October 2003

Multiple sequence alignment with the Clustal series of programs.

Nucleic Acids Res 2003 Jul;31(13):3497-500

European Molecular Biology Laboratory, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC168907PMC
http://dx.doi.org/10.1093/nar/gkg500DOI Listing
July 2003

AHMII: Agent to Help Microbial Information Integration.

Nucleic Acids Res 2003 Jul;31(13):3727-8

Center for Information Biology and DDBJ, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC168930PMC
http://dx.doi.org/10.1093/nar/gkg523DOI Listing
July 2003

[Introducing the second Bioinformatics Series].

Authors:
Hideaki Sugawara

Tanpakushitsu Kakusan Koso 2002 Oct;47(13):1861-2

View Article

Download full-text PDF

Source
October 2002

Genome Information Broker (GIB): data retrieval and comparative analysis system for completed microbial genomes and more.

Nucleic Acids Res 2002 Jan;30(1):66-8

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata, Mishima 411-8540, Japan.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC99149PMC
http://dx.doi.org/10.1093/nar/30.1.66DOI Listing
January 2002