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

dc.contributor.authorKatayama, Toshiaki
dc.contributor.authorVos, Rutger A.
dc.contributor.authorMishima, Hiroyuki
dc.contributor.authorKawano, Shin
dc.contributor.authorKawashima, Shuichi
dc.contributor.authorKim, Jin Dong
dc.contributor.authorMoriya, Yuki
dc.contributor.authorTokimatsu, Toshiaki
dc.contributor.authorYamaguchi, Atsuko
dc.contributor.authorYamamoto, Yasunori
dc.contributor.authorWu, Hongyan
dc.contributor.authorAmstutz, Peter
dc.contributor.authorAntezana, Erick
dc.contributor.authorAoki, Nobuyuki P.
dc.contributor.authorArakawa, Kazuharu
dc.contributor.authorBolleman, Jerven T.
dc.contributor.authorBolton, Evan
dc.contributor.authorBonnal, Raoul J.P.
dc.contributor.authorBono, Hidemasa
dc.contributor.authorBurger, Kees
dc.contributor.authorChiba, Hirokazu
dc.contributor.authorCohen, Kevin B.
dc.contributor.authorDeutsch, Eric W.
dc.contributor.authorFernández-Breis, Jesualdo T.
dc.contributor.authorFu, Gang
dc.contributor.authorFujisawa, Takatomo
dc.contributor.authorFukushima, Atsushi
dc.contributor.authorGarcía, Alexander
dc.contributor.authorGoto, Naohisa
dc.contributor.authorGroza, Tudor
dc.contributor.authorHercus, Colin
dc.contributor.authorHoehndorf, Robert
dc.contributor.authorItaya, Kotone
dc.contributor.authorJuty, Nick
dc.contributor.authorKawashima, Takeshi
dc.contributor.authorKim, Jee Hyub
dc.contributor.authorKinjo, Akira R.
dc.contributor.authorKotera, Masaaki
dc.contributor.authorKozaki, Kouji
dc.contributor.authorKumagai, Sadahiro
dc.contributor.authorKushida, Tatsuya
dc.contributor.authorLütteke, Thomas
dc.contributor.authorMatsubara, Masaaki
dc.contributor.authorMiyamoto, Joe
dc.contributor.authorMohsen, Attayeb
dc.contributor.authorMori, Hiroshi
dc.contributor.authorNaito, Yuki
dc.contributor.authorNakazato, Takeru
dc.contributor.authorNguyen-Xuan, Jeremy
dc.contributor.authorNishida, Kozo
dc.contributor.authorNishida, Naoki
dc.contributor.authorNishide, Hiroyo
dc.contributor.authorOgishima, Soichi
dc.contributor.authorOhta, Tazro
dc.contributor.authorOkuda, Shujiro
dc.contributor.authorPaten, Benedict
dc.contributor.authorPerret, Jean Luc
dc.contributor.authorPrathipati, Philip
dc.contributor.authorPrins, Pjotr
dc.contributor.authorQueralt-Rosinach, Núria
dc.contributor.authorShinmachi, Daisuke
dc.contributor.authorSuzuki, Shinya
dc.contributor.authorTabata, Tsuyosi
dc.contributor.authorTakatsuki, Terue
dc.contributor.authorTaylor, Kieron
dc.contributor.authorThompson, Mark
dc.contributor.authorUchiyama, Ikuo
dc.contributor.authorVieira, Bruno
dc.contributor.authorWei, Chih Hsuan
dc.contributor.authorWilkinson, Mark
dc.contributor.authorYamada, Issaku
dc.contributor.authorYamanaka, Ryota
dc.contributor.authorYoshitake, Kazutoshi
dc.contributor.authorYoshizawa, Akiyasu C.
dc.contributor.authorDumontier, Michel
dc.contributor.authorKosaki, Kenjiro
dc.contributor.authorTakagi, Toshihisa
dc.date.accessioned2020-05-17T08:40:20Z
dc.date.available2020-05-17T08:40:20Z
dc.date.issued2020-02-24
dc.identifier.citationVos, R. A., Katayama, T., Mishima, H., Kawano, S., Kawashima, S., Kim, J.-D., … Yamamoto, Y. (2020). BioHackathon 2015: Semantics of data for life sciences and reproducible research. F1000Research, 9, 136. doi:10.12688/f1000research.18236.1
dc.identifier.issn1759-796X
dc.identifier.issn2046-1402
dc.identifier.doi10.12688/f1000research.18236.1
dc.identifier.urihttp://hdl.handle.net/10754/662837
dc.description.abstractWe 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.
dc.description.sponsorshipBH15 is supported by the Integrated Database Project (Ministry of Education, Culture, Sports, Science and Technology of Japan) and hosted by the National Bioscience Database Center (NBDC) and the Database Center for Life Science (DBCLS). We thank Yuji Kohara, the director of DBCLS, for his support of the BioHackathons.
dc.publisherF1000 Research Ltd
dc.relation.urlhttps://f1000research.com/articles/9-136/v1
dc.relation.urlhttps://f1000research.com/articles/9-136/v1/pdf
dc.relation.urlhttps://f1000research.com/articles/9-136/v1/pdf
dc.rightsThis is an open access peer review report distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.rightsThis file is an open access version redistributed from: https://f1000research.com/articles/9-136/v1/pdf
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.titleBioHackathon 2015: Semantics of data for life sciences and reproducible research
dc.typeArticle
dc.contributor.departmentBio-Ontology Research Group (BORG)
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.contributor.departmentComputer Science Program
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.identifier.journalF1000Research
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionDatabase Center for Life Science, Tokyo, JPN
dc.contributor.institutionInstitute of Biology Leiden, Leiden University, Leiden, NLD
dc.contributor.institutionNaturalis Biodiversity Center, Leiden, NLD
dc.contributor.institutionDepartment of Human Genetics, Nagasaki University Graduate School of Biomedical Sciences, Nagasaki, JPN
dc.contributor.institutionDDBJ Center, National Institute of Genetics, Mishima, JPN
dc.contributor.institutionShenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, CHN
dc.contributor.institutionCuroverse, Somerville, USA
dc.contributor.institutionDepartment of Biology, Norwegian University of Science and Technology, Trondheim, NOR
dc.contributor.institutionFaculty of Science and Engineering, SOKA University, Tokyo, JPN
dc.contributor.institutionInstitute for Advanced Biosciences, Keio University, Tokyo, JPN
dc.contributor.institutionSIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, Lausanne, CHE
dc.contributor.institutionNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, USA
dc.contributor.institutionIstituto Nazionale Genetica Molecolare, Romeo ed Enrica Invernizzi, Milan, ITA
dc.contributor.institutionDutch Techcentre for Life Sciences, Utrecht, NLD
dc.contributor.institutionNational Institute for Basic Biology, National Institutes of Natural Sciences, Okazaki, JPN
dc.contributor.institutionComputational Bioscience Program, University of Colorado School of Medicine, Denver, USA
dc.contributor.institutionUniversité Paris-Saclay, LIMSI, CNRS, Paris, FRA
dc.contributor.institutionInstitute for Systems Biology, Seattle, USA
dc.contributor.institutionUniversidad de Murcia, IMIB-Arrixaca, Murcia, ESP
dc.contributor.institutionNational Institute of Genetics, Mishima, JPN
dc.contributor.institutionRIKEN Center for Sustainable Resource Science, Yokohama, JPN
dc.contributor.institutionPolytechnic University of Madrid, Madrid, ESP
dc.contributor.institutionResearch Institute for Microbial Diseases, Osaka University, Osaka, JPN
dc.contributor.institutionSt Vincent's Clinical School, Faculty of Medicine, University of New South Wales, Darlinghurst, AUS
dc.contributor.institutionKinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Darlinghurst, AUS
dc.contributor.institutionNovocraft Technologies Sdn. Bhd., Selangor, MYS
dc.contributor.institutionEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, GBR
dc.contributor.institutionInstitute for Protein Research, Osaka University, Osaka, JPN
dc.contributor.institutionSchool of Life Science and Technology, Tokyo Institute of Technology, Tokyo, JPN
dc.contributor.institutionThe Institute of Scientific and Industrial Research, Osaka University, Osaka, JPN
dc.contributor.institutionHitachi Ltd., Tokyo, JPN
dc.contributor.institutionNational Bioscience Database Center, Japan Science and Technology Agency, Tokyo, JPN
dc.contributor.institutionInstitute of Veterinary Physiology and Biochemistry, Justus-Liebig University Giessen, Giessen, DEU
dc.contributor.institutionGesellschaft für innovative Personalwirtschaftssysteme mbH (GIP GmbH), Offenbach, DEU
dc.contributor.institutionThe Noguchi Institute, Tokyo, JPN
dc.contributor.institutionNational Cancer Center Japan, Tokyo, JPN
dc.contributor.institutionNational Institutes of Biomedical Innovation, Health and Nutrition, Osaka, JPN
dc.contributor.institutionCenter for Information Biology, National Institute of Genetics, Mishima, JPN
dc.contributor.institutionLawrence Berkeley National Laboratory, Berkeley, USA
dc.contributor.institutionRIKEN Quantitative Biology Center, Osaka, JPN
dc.contributor.institutionDepartment of Systems Science, Osaka University, Osaka, JPN
dc.contributor.institutionTohoku Medical Megabank Organization, Tohoku University, Sendai, JPN
dc.contributor.institutionNiigata University Graduate School of Medical and Dental Sciences, Niigata, JPN
dc.contributor.institutionUC Santa Cruz Genomics Institute, University of California, Santa Cruz, USA
dc.contributor.institutionINVENesis, Neuchâtel, CHE
dc.contributor.institutionUniversity Medical Center Utrecht, Utrecht, NLD
dc.contributor.institutionUniversity of Tennessee Health Science Center, Memphis, USA
dc.contributor.institutionDepartment of Biomedical Informatics, Harvard Medical School, Boston, MA, USA
dc.contributor.institutionGraduate School of Pharmaceutical Sciences, Kyoto University, Kyoto, JPN
dc.contributor.institutionRIKEN BioResource Center, Ibaraki, JPN
dc.contributor.institutionLeiden University Medical Center, Leiden, NLD
dc.contributor.institutionWurmLab, School of Biological and Chemical Sciences, Queen Mary University of London, London, GBR
dc.contributor.institutionEscuela Técnica Superior de Ingeniería Agronómica, Alimentaria y de Biosistemas, Universidad Politécnica de Madrid, Madrid, ESP
dc.contributor.institutionOracle Corporation, Tokyo, JPN
dc.contributor.institutionGraduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, JPN
dc.contributor.institutionInstitute of Data Science, Maastricht University, Maastricht, NLD
dc.contributor.institutionCenter for Medical Genetics, Keio University School of Medicine, Tokyo, JPN
dc.contributor.institutionDepartment of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, JPN
dc.identifier.volume9
dc.identifier.pages136
kaust.personHoehndorf, Robert
dc.identifier.eid2-s2.0-85083755264
refterms.dateFOA2020-05-17T08:41:51Z


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This is an open access peer review report distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Except where otherwise noted, this item's license is described as This is an open access peer review report distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.