General information of database
info Alternative name -
info Creator
Creator Name:
Ken Kurokawa*
Link to J-GLOBAL
Link to researchmap
Creator Affiliation:
Center for Information Biology, National Institute of Genetics
Creator Name:
Yasukazu Nakamura
Link to J-GLOBAL
Link to researchmap
Creator Affiliation:
Center for Information Biology, National Institute of Genetics
Creator Name:
Ikuo Uchiyama
Link to J-GLOBAL
Link to researchmap
Creator Affiliation:
National Institute for Basic Biology
Creator Name:
Hiroshi Mori
Link to J-GLOBAL
Link to researchmap
Creator Affiliation:
Center for Information Biology, National Institute of Genetics
Creator Name:
Takatomo Fujisawa
Link to J-GLOBAL
Link to researchmap
Creator Affiliation:
Center for Information Biology, National Institute of Genetics
Creator Name:
Hirokazu Chiba
Creator Affiliation:
National Institute for Basic Biology
Creator Name:
Nozomi Yamamoto
Creator Affiliation:
School of Life Science, Tokyo Institute of Technology
Creator Name:
Shinya Suzuki
Creator Affiliation:
School of Life Science, Tokyo Institute of Technology
Creator Name:
Hiroyo Nishide
Creator Affiliation:
National Institute for Basic Biology
info Contact address 1111 Yata, Mishima, Shizuoka 41-8540, Japan
National Institute of Genetics
Center for Information Biology
Ken Kurokawa
E-mail: microbedb_address
info Database classification Integrated database of microbiological
info Database description MicrobeDB.jp is an integrated database of several microbiological datasets (e.g., genes, taxa, and environments) using semantic web technology with a gene/genome -centric approach.
info Features and manner of utilization of database MicrobeDB.jp version 2 (doi: 10.18908/lsdba.nbdc01181-000.V002) is an updated version of MicrobeDB.jp version 1 (doi: 10.18908/lsdba.nbdc01181-000.V001). Since version 1 contains microbial genome, ortholog, metagenome, and culture collection data that were obtained before 2013, we updated these data with reorganizing RDF data structures. Microbial environmental ontology and other ontologies were also updated. These ontologies were used for annotation of the data. The data format of MicrobeDB.jp version 2 are RDF and OWL. Users can use these data by (i) loading the data to Triplestore, and (ii) searching the data using SPARQL.
info Background and funding Database Integration Coordination Program, National Bioscience Database Center (NBDC), Japan Science and Technology Agency (JST).
Original website information
info Operation start date 2012/12/12/ (version 1)
info Last update date 2017年02月01日
info Whole data download -
info Referenced database NCBI RefSeq, INSDC GenBank, INSDC SRA, NBRC, JCM, NCBI BioProject, NCBI BioSample, NCBI Taxonomy, JGI GOLD, UniProt, PubMed
info Entry list Not available
info Query search Available
info Web services Not available
info URL of Web services -
info Need for user registration Not available