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Your search keyword '"Takeru, Nakazato"' showing total 2 results
Start Over Author "Takeru, Nakazato" Publisher f1000 research ltd
2 results on '"Takeru, Nakazato"'

1. BioHackathon 2015: Semantics of data for life sciences and reproducible research [version 1; peer review: 2 approved]

Author

Rutger A. Vos, Toshiaki Katayama, Hiroyuki Mishima, Shin Kawano, Shuichi Kawashima, Jin-Dong Kim, Yuki Moriya, Toshiaki Tokimatsu, Atsuko Yamaguchi, Yasunori Yamamoto, Hongyan Wu, Peter Amstutz, Erick Antezana, Nobuyuki P. Aoki, Kazuharu Arakawa, Jerven T. Bolleman, Evan Bolton, Raoul J. P. Bonnal, Hidemasa Bono, Kees Burger, Hirokazu Chiba, Kevin B. Cohen, Eric W. Deutsch, Jesualdo T. Fernández-Breis, Gang Fu, Takatomo Fujisawa, Atsushi Fukushima, Alexander García, Naohisa Goto, Tudor Groza, Colin Hercus, Robert Hoehndorf, Kotone Itaya, Nick Juty, Takeshi Kawashima, Jee-Hyub Kim, Akira R. Kinjo, Masaaki Kotera, Kouji Kozaki, Sadahiro Kumagai, Tatsuya Kushida, Thomas Lütteke, Masaaki Matsubara, Joe Miyamoto, Attayeb Mohsen, Hiroshi Mori, Yuki Naito, Takeru Nakazato, Jeremy Nguyen-Xuan, Kozo Nishida, Naoki Nishida, Hiroyo Nishide, Soichi Ogishima, Tazro Ohta, Shujiro Okuda, Benedict Paten, Jean-Luc Perret, Philip Prathipati, Pjotr Prins, Núria Queralt-Rosinach, Daisuke Shinmachi, Shinya Suzuki, Tsuyosi Tabata, Terue Takatsuki, Kieron Taylor, Mark Thompson, Ikuo Uchiyama, Bruno Vieira, Chih-Hsuan Wei, Mark Wilkinson, Issaku Yamada, Ryota Yamanaka, Kazutoshi Yoshitake, Akiyasu C. Yoshizawa, Michel Dumontier, Kenjiro Kosaki, and Toshihisa Takagi

Subjects
Medicine, Science
Abstract

We report on the activities of the 2015 edition of the BioHackathon, an annual event that brings together researchers and developers from around the world to develop tools and technologies that promote the reusability of biological data. We discuss issues surrounding the representation, publication, integration, mining and reuse of biological data and metadata across a wide range of biomedical data types of relevance for the life sciences, including chemistry, genotypes and phenotypes, orthology and phylogeny, proteomics, genomics, glycomics, and metabolomics. We describe our progress to address ongoing challenges to the reusability and reproducibility of research results, and identify outstanding issues that continue to impede the progress of bioinformatics research. We share our perspective on the state of the art, continued challenges, and goals for future research and development for the life sciences Semantic Web.

Published
2020
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2. BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services

Author

Akira R. Kinjo, Tatsuya Kushida, Hiroshi Mori, Shuichi Kawashima, Mark Wilkinson, Takeshi Kawashima, Mark Thompson, Leyla Garcia, Shin Kawano, Kazuharu Arakawa, Shujiro Okuda, Jerven Bolleman, Shinobu Okamoto, Toshihisa Takagi, Yusuke Komiyama, Emi Hattori, Hiroyo Nishide, Jin-Dong Kim, Toshiaki Tokimatsu, Kiyoko F. Aoki-Kinoshita, Tazro Ohta, Francesco Strozzi, Toshiaki Katayama, Daisuke Shinmachi, Karin Verspoor, Masaaki Kotera, Matthew Paul Campbell, Shinya Suzuki, Yue Wang, Katsuhiko Murakami, Simon Jupp, Sarala M. Wimalaratne, Issaku Yamada, Erick Antezana, Atsuko Yamaguchi, Kotone Itaya, Masaki Banno, Hirokazu Chiba, Alex Kalderimis, Joachim Baran, Andrea Splendiani, Masayuki Yarimizu, Soichi Ogishima, Yuki Moriya, Hongyan Wu, Robert Hoehndorf, Maori Ito, Toyofumi Fujiwara, Masaaki Matsubara, Gos Micklem, Peter J. A. Cock, Fumihiro Kato, Jesualdo Tomás Fernández-Breis, Yasunori Yamamoto, Takatomo Fujisawa, Hidemasa Bono, Takeru Nakazato, Yasset Perez-Riverol, Yosuke Nishimura, Junichi Takehara, Hiromasa Ono, Sayaka Mizutani, Nozomi Yamamoto, James Malone, Michel Dumontier, Simon Kocbek, Hideya Kawaji, Robert Buels, Pascale Gaudet, Shoko Kawamoto, Kevin Bretonnel Cohen, Daniel G. Jamieson, Ikuo Uchiyama, Nick Juty, Raoul J. P. Bonnal, and Satoshi Mizuno

Subjects
0301 basic medicine, 030102 biochemistry & molecular biology, General Immunology and Microbiology, Computer science, Service discovery, General Medicine, computer.file_format, Semantic interoperability, computer.software_genre, General Biochemistry, Genetics and Molecular Biology, Data sharing, World Wide Web, 03 medical and health sciences, 030104 developmental biology, SPARQL, General Pharmacology, Toxicology and Pharmaceutics, RDF, computer, Semantic Web, Data integration, RDF query language, computer.programming_language
Abstract

Publishing databases in the Resource Description Framework (RDF) model is becoming widely accepted to maximize the syntactic and semantic interoperability of open data in life sciences. Here we report advancements made in the 6th and 7th annual BioHackathons which were held in Tokyo and Miyagi respectively. This review consists of two major sections covering: 1) improvement and utilization of RDF data in various domains of the life sciences and 2) meta-data about these RDF data, the resources that store them, and the service quality of SPARQL Protocol and RDF Query Language (SPARQL) endpoints. The first section describes how we developed RDF data, ontologies and tools in genomics, proteomics, metabolomics, glycomics and by literature text mining. The second section describes how we defined descriptions of datasets, the provenance of data, and quality assessment of services and service discovery. By enhancing the harmonization of these two layers of machine-readable data and knowledge, we improve the way community wide resources are developed and published. Moreover, we outline best practices for the future, and prepare ourselves for an exciting and unanticipatable variety of real world applications in coming years.

Published
2019
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