Toshiaki Katayama

Toshiaki Katayama

UNVERIFIED PROFILE

Are you Toshiaki Katayama?   Register this Author

Register author
Toshiaki Katayama

Toshiaki Katayama

Publications by authors named "Toshiaki Katayama"

Are you Toshiaki Katayama?   Register this Author

41Publications

1263Reads

17Profile Views

Sharing Programming Resources Between Bio* Projects.

Methods Mol Biol 2019 ;1910:747-766

Department of Genetics, Center for Molecular Medicine, University Medical Center Utrecht, Utrecht University, Utrecht, The Netherlands.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-9074-0_25DOI Listing
January 2019

NBDC RDF portal: a comprehensive repository for semantic data in life sciences.

Database (Oxford) 2018 01 1;2018. Epub 2018 Jan 1.

National Bioscience Database Center, Japan Science and Technology Agency, 5-3 Yonbancho, Chiyoda-ku, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/database/bay123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6301334PMC
January 2018

DNA Data Bank of Japan.

Nucleic Acids Res 2017 01 24;45(D1):D25-D31. Epub 2016 Oct 24.

DDBJ Center, National Institute of Genetics, Shizuoka 411-8540, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkw1001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5210514PMC
January 2017

DNA data bank of Japan (DDBJ) progress report.

Nucleic Acids Res 2016 Jan 17;44(D1):D51-7. Epub 2015 Nov 17.

DDBJ Center, National Institute of Genetics, Shizuoka 411-8540, Japan National Bioscience Database Center, Japan Science and Technology Agency, Tokyo 102-8666, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkv1105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702806PMC
January 2016

SPARQL-enabled identifier conversion with Identifiers.org.

Bioinformatics 2015 Jun 31;31(11):1875-7. Epub 2015 Jan 31.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK, Swiss-Prot group, Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1211 Geneve, Switzerland, Database Center for Life Science (DCLS), Research Organization of Information and Systems, 178-4-4 Wakashiba, Kashiwa, Chiba 277-0871, Japan, Stanford Center for Biomedical Informatics Research, Stanford University, CA 94305-5479, USA and Babraham Institute, Babraham Research Campus, Cambridge, CB22 3AT, UK.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btv064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4443684PMC
June 2015

Implementation of linked data in the life sciences at BioHackathon 2011.

J Biomed Semantics 2015 7;6. Epub 2015 Jan 7.

Department of Bioclinical informatics, Tohoku Medical Megabank Organization, Tohoku University, Seiryo-cho 4-1, Aoba-ku, Sendai-shi Miyagi, 980-8575 Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/2041-1480-6-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4429360PMC
May 2015

The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data.

Nucleic Acids Res 2015 Jan 3;43(Database issue):D18-22. Epub 2014 Dec 3.

DDBJ Center, National Institute of Genetics, Shizuoka 411-8540, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gku1120DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383935PMC
January 2015

TogoTable: cross-database annotation system using the Resource Description Framework (RDF) data model.

Nucleic Acids Res 2014 Jul 14;42(Web Server issue):W442-8. Epub 2014 May 14.

Database Center for Life Science, Research Organization of Information and Systems, 178-4-4 Wakashiba, Kashiwa, Chiba 277-0871, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gku403DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086138PMC
July 2014

BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains.

J Biomed Semantics 2014 Feb 5;5(1). Epub 2014 Feb 5.

Database Center for Life Science, Research Organization of Information and Systems, 2-11-16, Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/2041-1480-5-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3978116PMC
February 2014

CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes.

Nucleic Acids Res 2014 Jan 25;42(Database issue):D666-70. Epub 2013 Nov 25.

Center for Information Biology, National Institute of Genetics, Research Organization of Information and Systems, Yata, Mishima 411-8540, Japan, Database Center for Life Science, Research Organization of Information and Systems, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan, Faculty of Life Sciences, Kyoto Sangyo University, Motoyama, Kamigamo, Kita-Ku, Kyoto 603-8555, Japan and Kazusa DNA Research Institute, 2-6-7 Kazusa-Kamatari, Kisarazu 292-0818, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkt1145DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3965071PMC
January 2014

KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters.

Nucleic Acids Res 2013 Jan 27;41(Database issue):D353-7. Epub 2012 Nov 27.

Center for Transdisciplinary Research, Niigata University, 1-757 Asahimachi-dori, Chuo-ku, Niigata 951-8585, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gks1239DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531156PMC
January 2013

The Ruby UCSC API: accessing the UCSC genome database using Ruby.

BMC Bioinformatics 2012 Sep 21;13:240. Epub 2012 Sep 21.

Department of Human Genetics, Nagasaki University Graduate School of Biomedical Sciences, 1-12-4 Sakamoto, Nagasaki, Nagasaki, 852-8523, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-13-240DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3542311PMC
September 2012

BioRuby: bioinformatics software for the Ruby programming language.

Bioinformatics 2010 Oct 25;26(20):2617-9. Epub 2010 Aug 25.

Department of Genome Informatics, Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btq475DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2951089PMC
October 2010

TogoWS: integrated SOAP and REST APIs for interoperable bioinformatics Web services.

Nucleic Acids Res 2010 Jul 14;38(Web Server issue):W706-11. Epub 2010 May 14.

Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokane-dai, Minato-ku, Tokyo 108-8639, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkq386DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2896079PMC
July 2010

Full-Malaria/Parasites and Full-Arthropods: databases of full-length cDNAs of parasites and arthropods, update 2009.

Nucleic Acids Res 2009 Jan 4;37(Database issue):D520-5. Epub 2008 Nov 4.

Department of Medical Genome Sciences, Graduate School of Frontier Sciences, The University of Tokyo. 4-6-1, Shirokanedai, Minatoku, Tokyo 108-8639, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkn856DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686583PMC
January 2009

KEGG Atlas mapping for global analysis of metabolic pathways.

Nucleic Acids Res 2008 Jul 13;36(Web Server issue):W423-6. Epub 2008 May 13.

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

View Article

Download full-text PDF

Source
https://nar.oxfordjournals.org/content/36/suppl_2/W423.full-
Web Search
http://nar.oxfordjournals.org/lookup/doi/10.1093/nar/gkn282
Publisher Site
http://dx.doi.org/10.1093/nar/gkn282DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447737PMC
July 2008

AAindex: amino acid index database, progress report 2008.

Nucleic Acids Res 2008 Jan 12;36(Database issue):D202-5. Epub 2007 Nov 12.

Laboratory of Genome Database, Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokane-dai Minato-ku Tokyo 108-8639, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkm998DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238890PMC
January 2008

KEGG for linking genomes to life and the environment.

Nucleic Acids Res 2008 Jan 12;36(Database issue):D480-4. Epub 2007 Dec 12.

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkm882DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238879PMC
January 2008

From genomics to chemical genomics: new developments in KEGG.

Nucleic Acids Res 2006 Jan;34(Database issue):D354-7

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkj102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347464PMC
January 2006

ODB: a database of operons accumulating known operons across multiple genomes.

Nucleic Acids Res 2006 Jan;34(Database issue):D358-62

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan.

View Article

Download full-text PDF

Source
https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
Publisher Site
http://dx.doi.org/10.1093/nar/gkj037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347400PMC
January 2006

Utilizing evolutionary information and gene expression data for estimating gene networks with bayesian network models.

J Bioinform Comput Biol 2005 Dec;3(6):1295-313

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto, 611-0011, Japan.

View Article

Download full-text PDF

Source
December 2005