BioHackathon 2015: Semantics of data for life sciences and reproducible research

Toshiaki Katayama; Rutger A. Vos; 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; Toshihisa Takagi

doi:10.12688/f1000research.18236.1

BioHackathon 2015: Semantics of data for life sciences and reproducible research

Toshiaki Katayama, Rutger A. Vos, 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 BurgerHirokazu 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, Toshihisa Takagi

研究成果: Article › 査読

1 被引用数 (Scopus)

抄録

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.

本文言語	English
論文番号	136
ジャーナル	F1000Research
巻	9
DOI	https://doi.org/10.12688/f1000research.18236.1
出版ステータス	Published - 2020

ASJC Scopus subject areas

Biochemistry, Genetics and Molecular Biology(all)
Immunology and Microbiology(all)
Pharmacology, Toxicology and Pharmaceutics(all)

文献へのアクセス

10.12688/f1000research.18236.1

フィンガープリント「BioHackathon 2015: Semantics of data for life sciences and reproducible research」の研究トピックを掘り下げます。これらがまとまってユニークなフィンガープリントを構成します。

引用スタイル

Katayama, T., Vos, R. A., Mishima, H., Kawano, S., Kawashima, S., Kim, J. D., Moriya, Y., Tokimatsu, T., Yamaguchi, A., Yamamoto, Y., Wu, H., Amstutz, P., Antezana, E., Aoki, N. P., Arakawa, K., Bolleman, J. T., Bolton, E., Bonnal, R. J. P., Bono, H., ... Takagi, T. (2020). BioHackathon 2015: Semantics of data for life sciences and reproducible research. F1000Research, 9, [136]. https://doi.org/10.12688/f1000research.18236.1

BioHackathon 2015 : Semantics of data for life sciences and reproducible research. / Katayama, Toshiaki; Vos, Rutger A.; Mishima, Hiroyuki; Kawano, Shin; Kawashima, Shuichi; Kim, Jin Dong; Moriya, Yuki; Tokimatsu, Toshiaki; Yamaguchi, Atsuko; Yamamoto, Yasunori; Wu, Hongyan; Amstutz, Peter; Antezana, Erick; Aoki, Nobuyuki P.; Arakawa, Kazuharu; Bolleman, Jerven T.; Bolton, Evan; Bonnal, Raoul J.P.; Bono, Hidemasa; Burger, Kees; Chiba, Hirokazu; Cohen, Kevin B.; Deutsch, Eric W.; Fernández-Breis, Jesualdo T.; Fu, Gang; Fujisawa, Takatomo; Fukushima, Atsushi; García, Alexander; Goto, Naohisa; Groza, Tudor; Hercus, Colin; Hoehndorf, Robert; Itaya, Kotone; Juty, Nick; Kawashima, Takeshi; Kim, Jee Hyub; Kinjo, Akira R.; Kotera, Masaaki; Kozaki, Kouji; Kumagai, Sadahiro; Kushida, Tatsuya; Lütteke, Thomas; Matsubara, Masaaki; Miyamoto, Joe; Mohsen, Attayeb; Mori, Hiroshi; Naito, Yuki; Nakazato, Takeru; Nguyen-Xuan, Jeremy; Nishida, Kozo; Nishida, Naoki; Nishide, Hiroyo; Ogishima, Soichi; Ohta, Tazro; Okuda, Shujiro; Paten, Benedict; Perret, Jean Luc; Prathipati, Philip; Prins, Pjotr; Queralt-Rosinach, Núria; Shinmachi, Daisuke; Suzuki, Shinya; Tabata, Tsuyosi; Takatsuki, Terue; Taylor, Kieron; Thompson, Mark; Uchiyama, Ikuo; Vieira, Bruno; Wei, Chih Hsuan; Wilkinson, Mark; Yamada, Issaku; Yamanaka, Ryota; Yoshitake, Kazutoshi; Yoshizawa, Akiyasu C.; Dumontier, Michel; Kosaki, Kenjiro; Takagi, Toshihisa.

In: F1000Research, Vol. 9, 136, 2020.

研究成果: Article › 査読

Katayama, T, Vos, RA, Mishima, H, Kawano, S, Kawashima, S, Kim, JD, Moriya, Y, Tokimatsu, T, Yamaguchi, A, Yamamoto, Y, Wu, H, Amstutz, P, Antezana, E, Aoki, NP, Arakawa, K, Bolleman, JT, Bolton, E, Bonnal, RJP, Bono, H, Burger, K, Chiba, H, Cohen, KB, Deutsch, EW, Fernández-Breis, JT, Fu, G, Fujisawa, T, Fukushima, A, García, A, Goto, N, Groza, T, Hercus, C, Hoehndorf, R, Itaya, K, Juty, N, Kawashima, T, Kim, JH, Kinjo, AR, Kotera, M, Kozaki, K, Kumagai, S, Kushida, T, Lütteke, T, Matsubara, M, Miyamoto, J, Mohsen, A, Mori, H, Naito, Y, Nakazato, T, Nguyen-Xuan, J, Nishida, K, Nishida, N, Nishide, H, Ogishima, S, Ohta, T, Okuda, S, Paten, B, Perret, JL, Prathipati, P, Prins, P, Queralt-Rosinach, N, Shinmachi, D, Suzuki, S, Tabata, T, Takatsuki, T, Taylor, K, Thompson, M, Uchiyama, I, Vieira, B, Wei, CH, Wilkinson, M, Yamada, I, Yamanaka, R, Yoshitake, K, Yoshizawa, AC, Dumontier, M, Kosaki, K & Takagi, T 2020, 'BioHackathon 2015: Semantics of data for life sciences and reproducible research', F1000Research, vol. 9, 136. https://doi.org/10.12688/f1000research.18236.1

Katayama, Toshiaki ; Vos, Rutger A. ; Mishima, Hiroyuki ; Kawano, Shin ; Kawashima, Shuichi ; Kim, Jin Dong ; Moriya, Yuki ; Tokimatsu, Toshiaki ; Yamaguchi, Atsuko ; Yamamoto, Yasunori ; Wu, Hongyan ; Amstutz, Peter ; Antezana, Erick ; Aoki, Nobuyuki P. ; Arakawa, Kazuharu ; Bolleman, Jerven T. ; Bolton, Evan ; Bonnal, Raoul J.P. ; Bono, Hidemasa ; Burger, Kees ; Chiba, Hirokazu ; Cohen, Kevin B. ; Deutsch, Eric W. ; Fernández-Breis, Jesualdo T. ; Fu, Gang ; Fujisawa, Takatomo ; Fukushima, Atsushi ; García, Alexander ; Goto, Naohisa ; Groza, Tudor ; Hercus, Colin ; Hoehndorf, Robert ; Itaya, Kotone ; Juty, Nick ; Kawashima, Takeshi ; Kim, Jee Hyub ; Kinjo, Akira R. ; Kotera, Masaaki ; Kozaki, Kouji ; Kumagai, Sadahiro ; Kushida, Tatsuya ; Lütteke, Thomas ; Matsubara, Masaaki ; Miyamoto, Joe ; Mohsen, Attayeb ; Mori, Hiroshi ; Naito, Yuki ; Nakazato, Takeru ; Nguyen-Xuan, Jeremy ; Nishida, Kozo ; Nishida, Naoki ; Nishide, Hiroyo ; Ogishima, Soichi ; Ohta, Tazro ; Okuda, Shujiro ; Paten, Benedict ; Perret, Jean Luc ; Prathipati, Philip ; Prins, Pjotr ; Queralt-Rosinach, Núria ; Shinmachi, Daisuke ; Suzuki, Shinya ; Tabata, Tsuyosi ; Takatsuki, Terue ; Taylor, Kieron ; Thompson, Mark ; Uchiyama, Ikuo ; Vieira, Bruno ; Wei, Chih Hsuan ; Wilkinson, Mark ; Yamada, Issaku ; Yamanaka, Ryota ; Yoshitake, Kazutoshi ; Yoshizawa, Akiyasu C. ; Dumontier, Michel ; Kosaki, Kenjiro ; Takagi, Toshihisa. / BioHackathon 2015 : Semantics of data for life sciences and reproducible research. In: F1000Research. 2020 ; Vol. 9.

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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.",

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AU - Kawashima, Shuichi

AU - Kim, Jin Dong

AU - Moriya, Yuki

AU - Tokimatsu, Toshiaki

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AU - Perret, Jean Luc

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AU - Vieira, Bruno

AU - Wei, Chih Hsuan

AU - Wilkinson, Mark

AU - Yamada, Issaku

AU - Yamanaka, Ryota

AU - Yoshitake, Kazutoshi

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