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

Database statistics

Total number of Metagenomic samples (SRA/SRS):
173,359 samples
- with taxonomic analysis results:
60,551 samples
- with functional analysis results:
4,048 samples
Total number of Assembled Genomes (RefSeq/Genbank):
16,983 taxa
Total number of Strains (JCM/NBRC):
16,671 strains
Total number of Environmental terms in ontology (MEO):
2,381 terms
Statistical chart of metagenomic samples

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 document#sesource for more information.

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.

Comparative Analysis

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.

Upload Your Data

By uploading the data to MicrobeDB.jp, you can execute comparative analysis between your data and genomic and metagenomic analysis results on MicrobeDB.jp. For that, you need to create your account and sign in. See document#repository for more information.