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Data name ⇅	Database name ⇅	DOI ⇅	Description of data contents ⇅	Data acquisition method ⇅	Data analysis method ⇅	Data detail
GOLD	MicrobeDB.jp	10.18908/lsdba.nbdc01181-008.V002	Annotation results of phenotypes of genome-sequenced microbes in JGI GOLD by using MPO.	Metadata of genome-sequenced microbes were obtained from JGI GOLD.		Data detail open_in_full
NCBI	MicrobeDB.jp	10.18908/lsdba.nbdc01181-009.V002	The RDF data of several NCBI related data (i.e., BioProject, BioSample, PubMed, and Assembly) which are important to integrate data in MicrobeDB.jp version 2. Data file (compressed in tar.gzip) consists of 4 directories (see the following table).	The data that are important to integrate data in MicrobeDB.jp version 2 were obtained by parsing XML and TSV format files in NCBI.		Data detail open_in_full
Ontology	MicrobeDB.jp	10.18908/lsdba.nbdc01181-004.V002	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).	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.		Data detail open_in_full
Ortholog	MicrobeDB.jp	10.18908/lsdba.nbdc01181-010.V002	Microbial ortholog RDF data obtained from MBGD. Genome sequences of Refsequence data were used for ortholog clustering in MBGD. In those RDF files, the IDs and host phylogenetic information of genes belong to each ortholog cluster are described. Functional categories of the ortholog clusters are also described.	We obtained these ortholog RDF data from MBGD in January 2015.		Data detail open_in_full
Refsequence	MicrobeDB.jp	10.18908/lsdba.nbdc01181-005.V002	Microbial complete genome and high quality draft genome annotation RDF data. We used corresponding amino acid sequence data for MBGD ortholog clustering and functional assignments of metagenome data. Information on each replicon in the genomes are described in a RDF file using FALDO, SO, and other ontologies. Data file (compressed in tar.gzip) consists of directories divided by genome. Each directory has a genome RDF file to indicate replicon.	Microbial high quality draft (identified by using the MBGD criteria) and complete genome annotation data were obtained from NCBI RefSeq and GenBank.		Data detail open_in_full
Data name	Database name	DOI	Description of data contents	Data acquisition method	Data analysis method	Data detail