The identifier mapping that is used in PathVisio is provided by BridgeDb. There are mapping databases available for gene products, metabolites and interactions. The gene product databases are created for each species separately.
The metabolite mappings come from HMDB, ChEBI, and Wikidata, the gene product mappings are build from Ensembl and the interaction mappings are obtained from Rhea.
Metabolite database
| Database | Build date |
| Metabolites (all species) | 2016-10-12 |
Interaction database
| Database | Build date |
| Interactions (all species) | 2016-09-27 |
Gene product/protein database
| Database | Build date |
| Homo sapiens | 2016-10-18 |
| Mus musulus | 2016-10-18 |
| Rattus norvegicus | 2016-10-18 |
| Anopheles gambiae | 2016-10-18 |
| Arabidopsis thaliana | 2016-10-18 |
| Caenorhabditis elegans | 2016-10-18 |
| Danio Rerio | 2016-10-18 |
| Drosophila melanogaster | 2016-10-18 |
| Oryza sativa | 2016-10-18 |
| Saccharomyces cerevisiae | 2016-10-18 |
| Other species and older versions |