RIKEN Plant Metabolonome MetaDatabase

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BFO http://metadb.riken.jp/pmm/ontology/BFO: The Basic Formal Ontology (BFO)
(Original site: http://ifomis.uni-saarland.de/bfo/)
BIBO http://metadb.riken.jp/pmm/ontology/BIBO: Bibliographic Ontology
(Original site: http://bibliontology.com/)
CELL http://metadb.riken.jp/pmm/ontology/CELL: CELL
CHMO http://metadb.riken.jp/pmm/ontology/CHMO: Chemical Methods Ontology
(Original site: http://purl.obolibrary.org/obo/chmo.owl)
ChEBI http://metadb.riken.jp/pmm/ontology/ChEBI: Chemical Entities of Biological Interest (ChEBI)
(Original site: http://www.ebi.ac.uk/chebi/)
DDBJ-DRA http://metadb.riken.jp/pmm/ontology/DDBJ-DRA: DDBJ-DRA
EFO http://metadb.riken.jp/pmm/ontology/EFO: Experimental Factor Ontology
(Original site: https://www.ebi.ac.uk/efo/)
ENVO http://metadb.riken.jp/pmm/ontology/ENVO: Environment Ontology
(Original site: http://purl.bioontology.org/ontology/ENVO)
EO http://metadb.riken.jp/pmm/ontology/EO: Plant Environment Ontology
FALDO http://metadb.riken.jp/pmm/ontology/FALDO: Feature Annotation Location Description Ontology
(Original site: https://github.com/JervenBolleman/FALDO)
GO http://metadb.riken.jp/pmm/ontology/GO: Gene Ontology (GO)
(Original site: http://geneontology.org)
GR_tax http://metadb.riken.jp/pmm/ontology/GR_tax: Gramine Taxonomy Ontology
IAO http://metadb.riken.jp/pmm/ontology/IAO: Information Artifact Ontology
(Original site: http://purl.obolibrary.org/obo/iao)
ISA http://metadb.riken.jp/pmm/ontology/ISA: Investigation/Study/Assay
(Original site: http://isa-tools.org/)
LU http://metadb.riken.jp/pmm/ontology/LU: Left Unit Ontology
(Original site: http://metadb.riken.jp/db/LU)
MCCV http://metadb.riken.jp/pmm/ontology/MCCV: Microbial Culture Collection Vocabulary (MCCV)
(Original site: http://bioportal.bioontology.org/ontology/MCCV?p=classes&conceptid=root)
MEO http://metadb.riken.jp/pmm/ontology/MEO: Metagenome and Microbes Environmental Ontology
(Original site: http://bioportal.bioontology.org/ontologies/MEO)
MMO http://metadb.riken.jp/pmm/ontology/MMO: Measurement Method Ontology
(Original site: http://sourceforge.net/projects/phenoonto/)
MPO http://metadb.riken.jp/pmm/ontology/MPO: Microbial Phenotype Ontology (MPO)
(Original site: http://bioportal.bioontology.org/ontologies/MPO/?p=summary)
NCBITaxon http://metadb.riken.jp/pmm/ontology/NCBITaxon: NCBI Organismal Classification (NCBITaxon)
(Original site: http://wiki.obofoundry.org/wiki/index.php/NCBITaxon:Main_Page)
OBI http://metadb.riken.jp/pmm/ontology/OBI: Ontology for Biomedical Investigations
(Original site: http://purl.obolibrary.org/obo/obi)
PATO http://metadb.riken.jp/pmm/ontology/PATO: Phenotypic Quality (PATO)
(Original site: http://wiki.obofoundry.org/wiki/index.php/PATO:Main_Page)
PCT http://metadb.riken.jp/pmm/ontology/PCT: PCT
PO http://metadb.riken.jp/pmm/ontology/PO: Plant Ontology
(Original site: http://planteome.org)
RO http://metadb.riken.jp/pmm/ontology/RO: OBO-relation ontology (RO)
(Original site: https://code.google.com/p/obo-relations/)
SIO http://metadb.riken.jp/pmm/ontology/SIO: Semanticscience Integrated Ontology
(Original site: http://semanticscience.org)
SO http://metadb.riken.jp/pmm/ontology/SO: The Sequence Ontology
(Original site: http://www.sequenceontology.org/)
STATO http://metadb.riken.jp/pmm/ontology/STATO: Statistics Ontology
(Original site: http://stato-ontology.org/)
TO http://metadb.riken.jp/pmm/ontology/TO: Trait Ontology (TO)
UO http://metadb.riken.jp/pmm/ontology/UO: Units of Measurement (UO)
(Original site: https://code.google.com/p/unit-ontology/)

About RIKEN Meta Database

This database portal site is used to provide information on RIKEN's various life science databases to order to help researchers around the world make full use of RIKEN's research results.

The database provides life-science data in the bases of standardized metadata techniques including semantic web and Resource Description Framework (RDF).

W3C Dataset Descriptions: HCLS Community Profile

HCLSProfile_MataDB_ALL.ttl

Long-term recommendations for RIKEN's life sciences database platform (final report)

The direction and implementation guidelines for RIKEN databases and metadata maintenance have been discussed at the Database Working Group established within the Bioinformatics Exploratory Committee which examines technologies related to RIKEN's bioinformatics. The result of the discussion was summarized as 'Long-term recommendations for RIKEN's life sciences database platform (final report)'. The RIKEN MetaDatabase has been developed and published based on this recommendation.

Download the PDF file: LongTermRecommendataions_e.pdf

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