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Toshiaki Katayama
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2020 – today
- 2023
- [c11]Shuichi Kawashima, Takatomo Fujisawa, Toshiaki Katayama:
Genome Variation Ontology for annotation of complex structural variations. SWAT4HCLS 2023: 126-127 - 2022
- [j30]Shuya Ikeda
, Hiromasa Ono
TogoID: an exploratory ID converter to bridge biological datasets. Bioinform. 38(17): 4194-4199 (2022) - 2020
- [j29]Leyla J. García
Ten simple rules to run a successful BioHackathon. PLoS Comput. Biol. 16(5) (2020) - [i2]Rutger A. Vos
BioHackathon 2015: Semantics of data for life sciences and reproducible research. F1000Research 9: 136 (2020)
2010 – 2019
- 2019
- [j28]Toshiaki Katayama
TogoGenome/TogoStanza: modularized Semantic Web genome database. Database J. Biol. Databases Curation 2019: bay132 (2019) - [c10]Mayumi Kamada, Toshiaki Katayama, Shuichi Kawashima, Ryosuke Kojima, Masahiko Nakatsui, Yasushi Okuno:
Med2RDF: Semantic Biomedical Knowledge-base and APIs for the Clinical Genome Medicine. SWAT4HCLS 2019: 161-162 - [c9]Toshiaki Katayama:
MetaStanza: Generic WebComponents Widgets for Visualizing SPARQL Results on the Web. SWAT4HCLS 2019: 163-164 - [c8]Shuichi Kawashima, Toshiaki Katayama, Yuki Moriya, Shinobu Okamoto, Yasunori Yamamoto, Susumu Goto:
Integrated Growth Media Database by Standardizing Ingredient Information. SWAT4HCLS 2019: 165-166 - [i1]Toshiaki Katayama
BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services. F1000Research 8: 1677 (2019) - 2018
- [j27]Shuichi Kawashima
NBDC RDF portal: a comprehensive repository for semantic data in life sciences. Database J. Biol. Databases Curation 2018: bay123 (2018) - 2017
- [j26]Jun Mashima
DNA Data Bank of Japan. Nucleic Acids Res. 45(Database-Issue): D25-D31 (2017) - [c7]Mayumi Kamada, Toshiaki Katayama, Shuichi Kawashima, Ryosuke Kojima, Masahiko Nakatsui, Yasushi Okuno:
Construction of Knowledge-Base for Clinical Interpretation of Genomic Variants. SWAT4LS 2017 - [c6]Toshiaki Katayama, Shuichi Kawashima:
SPARQList: Markdown-Based Highly Configurable REST API Hosting Server for SPARQL. SWAT4LS 2017 - [c5]Shuichi Kawashima, Toshiaki Katayama:
SPARQL-Proxy: A Generic Proxy Server for SPARQL Endpoint. SWAT4LS 2017 - 2016
- [j25]Jerven T. Bolleman
FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation. J. Biomed. Semant. 7: 39 (2016) - [j24]Jun Mashima
DNA data bank of Japan (DDBJ) progress report. Nucleic Acids Res. 44(Database-Issue): 51-57 (2016) - 2015
- [j23]Sarala M. Wimalaratne
SPARQL-enabled identifier conversion with Identifiers.org. Bioinform. 31(11): 1875-1877 (2015) - [j22]Kiyoko F. Aoki-Kinoshita
Implementation of linked data in the life sciences at BioHackathon 2011. J. Biomed. Semant. 6: 3 (2015) - [j21]Yuichi Kodama
The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data. Nucleic Acids Res. 43(Database-Issue): 18-22 (2015) - [c4]Yasunori Yamamoto, Toshiaki Katayama:
D2RQ Mapper. SWAT4LS 2015: 152-154 - 2014
- [j20]Toshiaki Katayama, Mark D. Wilkinson
BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains. J. Biomed. Semant. 5: 5 (2014) - [j19]Steffen Möller
Community-driven development for computational biology at Sprints, Hackathons and Codefests. BMC Bioinform. 15(S-14): S7 (2014) - [j18]Masaaki Kotera, Yosuke Nishimura
PIERO ontology for analysis of biochemical transformations: Effective implementation of reaction information in the IUBMB enzyme list. J. Bioinform. Comput. Biol. 12(6) (2014) - [j17]Takatomo Fujisawa, Shinobu Okamoto, Toshiaki Katayama, Mitsuteru Nakao, Hidehisa Yoshimura, Hiromi Kajiya-Kanegae
CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes. Nucleic Acids Res. 42(Database-Issue): 666-670 (2014) - [j16]Shin Kawano
TogoTable: cross-database annotation system using the Resource Description Framework (RDF) data model. Nucleic Acids Res. 42(Webserver-Issue): 442-448 (2014) - [c3]Toshiaki Katayama:
D3SPARQL: JavaScript Library for Visualization of SPARQL Results. SWAT4LS 2014 - 2013
- [j15]Akihiro Nakaya, Toshiaki Katayama, Masumi Itoh, Kazushi Hiranuka, Shuichi Kawashima
KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters. Nucleic Acids Res. 41(Database-Issue): 353-357 (2013) - [c2]Toshiaki Katayama, Masataka Kikuchi, Soichi Ogishima:
Interactive Platform for Semantic Gene Expression Analysis of Alzheimer's Disease. SWAT4LS 2013 - 2012
- [j14]Raoul Jean Pierre Bonnal
Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics. Bioinform. 28(7): 1035-1037 (2012) - [j13]Hiroyuki Mishima
The Ruby UCSC API: accessing the UCSC genome database using Ruby. BMC Bioinform. 13: 240 (2012) - [c1]Toshiaki Katayama, Shinobu Okamoto, Shuichi Kawashima, Hiroshi Mori, Takatomo Fujisawa:
Semantic Integration of the Genome Annotations. SWAT4LS 2012 - 2011
- [j12]Jonathan M. Guberman, Jiye Ai, Olivier Arnaiz
BioMart Central Portal: an open database network for the biological community. Database J. Biol. Databases Curation 2011 (2011) - [j11]Toshiaki Katayama, Mark D. Wilkinson
The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications. J. Biomed. Semant. 2: 4 (2011) - 2010
- [j10]Naohisa Goto, Pjotr Prins
BioRuby: bioinformatics software for the Ruby programming language. Bioinform. 26(20): 2617-2619 (2010) - [j9]Toshiaki Katayama, Kazuharu Arakawa, Mitsuteru Nakao, Keiichiro Ono, Kiyoko F. Aoki-Kinoshita
The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. J. Biomed. Semant. 1: 8 (2010) - [j8]Toshiaki Katayama, Mitsuteru Nakao, Toshihisa Takagi:
TogoWS: integrated SOAP and REST APIs for interoperable bioinformatics Web services. Nucleic Acids Res. 38(Web-Server-Issue): 706-711 (2010)
2000 – 2009
- 2009
- [j7]Hiroyuki Wakaguri, Yutaka Suzuki, Toshiaki Katayama, Shuichi Kawashima
Full-Malaria/Parasites and Full-Arthropods: databases of full-length cDNAs of parasites and arthropods, update 2009. Nucleic Acids Res. 37(Database-Issue): 520-525 (2009) - 2008
- [j6]Shuichi Kawashima
AAindex: amino acid index database, progress report 2008. Nucleic Acids Res. 36(Database-Issue): 202-205 (2008) - [j5]Minoru Kanehisa, Michihiro Araki, Susumu Goto, Masahiro Hattori
KEGG for linking genomes to life and the environment. Nucleic Acids Res. 36(Database-Issue): 480-484 (2008) - [j4]Shujiro Okuda
KEGG Atlas mapping for global analysis of metabolic pathways. Nucleic Acids Res. 36(Web-Server-Issue): 423-426 (2008) - 2006
- [j3]Minoru Kanehisa, Susumu Goto, Masahiro Hattori, Kiyoko F. Aoki-Kinoshita
From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res. 34(Database-Issue): 354-357 (2006) - [j2]Shujiro Okuda
ODB: a database of operons accumulating known operons across multiple genomes. Nucleic Acids Res. 34(Database-Issue): 358-362 (2006) - 2005
- [j1]Yoshinori Tamada
Utilizing Evolutionary Information and Gene Expression Data for Estimating Gene Networks with Bayesian Network Models. J. Bioinform. Comput. Biol. 3(6): 1295-1314 (2005)
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