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Life Science Database Archive
MicrobeDB.jp

Ontology

Data detail

info Data name Ontology
info DOI 
info Version 
V2
V1-
info Description of data contents 

The ontology files that are used in MicrobeDB.jp version 2.
Data file (compressed in tar.gzip) consists of some directories (see the following table).

info Data file 
File name:
ontology.tar.gz
File URL:
https://dbarchive.biosciencedbc.jp/data/microbedb/LATEST/ontology.tar.gz
File size:
91 MB
info Simple search URL -
info Data acquisition method 

The MPO and MCCV files were obtained from a collaborator. The NCBI Taxonomy and INSDC ontology files were obtained from the DDBJ web site. Other ontologies were developed in this project.

info Data analysis method -
info Number of data entries 

21,722,610 triples

Data itemDescription
ontology/meo/meo.ttl An ontology for describing organismal habitats (especially focused on microbes).
ontology/meo/meo_fma_mapping.ttl An ontology mapping files that was mapped between MEO and FMA.
ontology/msv/msv.ttl An ontology for describing several states of sampling environment for metagenome analyses.
ontology/mdbv/mdbv.rdf A vocabulary for describing data schema in MicrobeDB.jp version 2.
ontology/mgfo/mgfo.ttl An ontology for describing the gene function category that is used in MBGD.
ontology/pdo/pdo.owl An ontology for describing both human infectious diseases caused by microbes and the diseases that is related to microbial infection.
ontology/csso/csso.owl An ontology for describing clinical signs and symptoms.
ontology/mpo/mpo.ttl An ontology for describing microbial phenotypes.
ontology/mccv/mccv.ttl Structured controlled vocabulary for describing meta information of microbial culture collection maintained in biological resource centers.
ontology/taxonomy/taxonomy.ttl Modified NCBI Taxonomy ontology for describing taxonomic relationships of organisms.
ontology/insdc/nucleotide.ttl A vocabulary for describing metadata of INSDC entries.