RIKEN Plant Metabolome MetaDatabase: an integrated plant metabolome data repository based on the semantic web
journal contributionposted on 01.12.2018 by Atsushi Fukushima, Mikiko Takahashi, Nozomu Sakurai, Toshiaki Tokimatsu, Hideki Nagasaki, Hideki Hirakawa, Takeshi Ara, Masanori Arita, Norio Kobayashi
Any type of content formally published in an academic journal, usually following a peer-review process.
We developed the RIKEN Plant Metabolome MetaDatabase(RIKEN PMM), which stores gas chromatography-mass spectrometry-based (i.e. GC-MS-based) metabolite proling data of plants together with their detailed experimental metadata, including sampling and experimental procedures. Our metadata are described using the Resource Description Framework (RDF) and standardised vocabularies, such as the Metabolomics Standardisation Initiative Application Ontology (MSI-AO), which are to be integrated with various life and biomedical science data on the World Wide Web. The RIKEN PMM implements intuitive and interactive operations for plant metabolome data, including raw data, mass spectra and metabolite annotations. The RIKNE PMM is suitable not only for scientists who are interested in metabolomic phenotypes but also for researchers who would like to investigate plant