PathBank is an interactive, visual database containing more than 100 000 machine-readable pathways found in model organisms such as humans, mice, E. coli, yeast, and Arabidopsis thaliana.
- Prefix
pathbank- Keywords
- chemical structure image/movie interaction/pathway metabolite ontology pathway protein
- License
- ODbL-1.0
- Links
- Homepage OBO OWL OBO JSON
Identifier Standards
- Pattern for Local Unique Identifiers
-
Local identifiers in PathBank should match this regular expression:
^(SMP|PW)\d+$ - Example Local Unique Identifier
- SMP0000219 Resolve
- Pattern for CURIES
-
Compact URIs (CURIEs) constructed from PathBank should match this regular expression:
^pathbank:(SMP|PW)\d+$ - Example CURIE
- pathbank:SMP0000219
Contacts
- Contact
- David S. Wishart 0000-0002-3207-2434 DavidWishartLab
- Contributors
- submitter Charles Tapley Hoyt 0000-0003-4423-4370 cthoyt
Metaregistry PathBank
The metaregistry provides mappings between the Semantic Farm and other registries. There are 2 mappings to external registries for this resource with 2 unique external prefixes.
| Registry Name | Registry Metaprefix | External Prefix | Curate |
|---|---|---|---|
Integbio
|
integbio |
nbdc02670
|
|
| TogoID | togoid |
Pathbank
|
Providers
A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).
The local unique identifier SMP0000219 is used to demonstrate the providers
available for PathBank. Some providers may use a different example, which is displayed in the table below.
A guide for curating additional providers can be found
here.
| Name | Metaprefix | URI |
|---|---|---|
| PathBank | pathbank |
https://pathbank.org/view/SMP0000219 |
| Bioregistry | bioregistry |
https://bioregistry.io/pathbank:SMP0000219 |