Integrating and representing genome, metagenome, taxonomy resources and the analysis datasets with Semantic Web Technologies.

SRA samples (Metagenomes):
173,359 samples
SRA samples (Taxonomic analysis):
60,551 samples
SRA samples (Functional analysis):
4,048 samples
Genome data (RefSeq/Genbank sequnence):
16,983 taxa
Strain (JCB/NBRC):
16,671 strains
Environmental term in ontology (MEO):
2,381 terms

Features

Keyword Search

MicrobeDB.jp provides a keyword search function with a simple interface. The keyword search gives the user free-text access to the literal fields of all RDF/OWL resources on MicrobeDB.jp. See Documentation#Resource for more information.

Comparison Search

MicrobeDB.jp provides Comparative Analysis Tools between the metagenome samples, the environment terms, the taxa, and sample metadata and taxonomic/functional analysis based on TogoStanza framework. If you are interested in comparative analysis , it can be visualized by using a comparison tool.

Representation and Visualization

For representation of database resources and analysis results, MicrobeDB.jp project has developed 197 TogoStanza, whch is a generic Web framework which enables the visualizing of reusable Web components that are embeddable into any Web applications. See Documentation#Stanza for more information.