Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 480138
Title BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains
Author(s) Katayama, T.; Wilkinson, M.D.; Aoki-Kinoshita, K.F.; Prins, J.C.P.
Source Journal of Biomedical Semantics 5 (2014). - ISSN 2041-1480
DOI https://doi.org/10.1186/2041-1480-5-5
Department(s) Laboratory of Nematology
EPS-2
Publication type Refereed Article in a scientific journal
Publication year 2014
Keyword(s) genome analysis environment - metabolic pathways - web services - gene - sequences - software - biology - normalization - collection - glycomics
Abstract The application of semantic technologies to the integration of biological data and the interoperability of bioinformatics analysis and visualization tools has been the common theme of a series of annual BioHackathons hosted in Japan for the past five years. Here we provide a review of the activities and outcomes from the BioHackathons held in 2011 in Kyoto and 2012 in Toyama. In order to efficiently implement semantic technologies in the life sciences, participants formed various sub-groups and worked on the following topics: Resource Description Framework (RDF) models for specific domains, text mining of the literature, ontology development, essential metadata for biological databases, platforms to enable efficient Semantic Web technology development and interoperability, and the development of applications for Semantic Web data. In this review, we briefly introduce the themes covered by these sub-groups. The observations made, conclusions drawn, and software development projects that emerged from these activities are discussed.
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